Index

A

accession (AnalysedRun attribute), [1], [2], [3] (AnalysedRunDetail attribute), [1], [2], [3] (Assembly attribute), [1], [2], [3] (AssemblyDetail attribute), [1], [2], [3] (GenomeDetail attribute), [1], [2], [3] (GenomeList attribute), [1], [2], [3] (GenomeSchema attribute), [1], [2], [3] (GenomeWithAnnotations attribute), [1], [2], [3] ACCESSION (GetGenomeCatalogueGenomesOrderType0 attribute), [1] (ListMgnifyGenomesOrderType0 attribute), [1] (ListMgnifyStudiesOrderType0 attribute), [1] accession (MGnifyAnalysis attribute), [1], [2], [3] (MGnifyAnalysisDetail attribute), [1], [2], [3] (MGnifyAnalysisWithAnnotations attribute), [1], [2], [3] (MGnifySample attribute), [1], [2], [3] (MGnifySampleDetail attribute), [1], [2], [3] (MGnifySampleWithMetadata attribute), [1], [2], [3] (MGnifyStudy attribute), [1], [2], [3] (MGnifyStudyAccessionLookup attribute), [1], [2], [3] (MGnifyStudyDetail attribute), [1], [2], [3] ACCESSION (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 attribute), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 attribute), [1] aclose() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (BioSampler method), [1] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (ClientManagerMixin method) (DWCTaxaMGazine method) (GenomeDetail method), [1] (Genomes method), [1], [2] (MGazine method), [1] (MGnetizer method), [1] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (MGnipy method), [1] (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] (TaxaMGazine method) add_id_param_field() (in module mgnipy.V2.mgnifier.metadata) add_note() (UnexpectedStatus method) add_pipeline_version_field() (in module mgnipy.V2.mgnifier.metadata) additional_keys (AdditionalContainedGenomeSchema property), [1] (AnalysedRun property), [1] (AnalysedRunDetail property), [1] (AnnotatedResult property), [1] (Assembly property), [1] (AssemblyDetail property), [1] (AssemblyDetailMetadataType0 property), [1] (AssemblyDetailStatusType0 property), [1] (Biome property), [1] (BiomeListFilters property), [1] (CobsMatch property), [1] (DownloadFileIndexFile property), [1] (EuropePmcAnnotation property), [1] (EuropePmcAnnotationGroup property), [1] (EuropePmcAnnotationMention property), [1] (EuropePmcAnnotationTag property), [1] (GenomeAssemblyLinkSchema property), [1] (GenomeCatalogueBase property), [1] (GenomeCatalogueBaseOtherStatsType0 property), [1] (GenomeCatalogueDetail property), [1] (GenomeCatalogueDetailOtherStatsType0 property), [1] (GenomeCatalogueList property), [1] (GenomeCatalogueListOtherStatsType0 property), [1] (GenomeDetail property), [1] (GenomeFilters property), [1] (GenomeFragmentSearchOut property), [1] (GenomeList property), [1] (GenomeSchema property), [1] (GenomeSearchData property), [1] (GenomeWithAnnotations property), [1] (GenomeWithAnnotationsAnnotations property), [1] (Input property), [1] (MGnifyAnalysis property), [1] (MGnifyAnalysisDetail property), [1] (MGnifyAnalysisDetailMetadataType0 property), [1] (MGnifyAnalysisDetailQualityControlSummaryType0 property), [1] (MGnifyAnalysisDownloadFile property), [1] (MGnifyAnalysisTypedAnnotation property), [1] (MGnifyAnalysisWithAnnotations property), [1] (MGnifyAnalysisWithAnnotationsAnnotations property), [1] (MGnifyAnalysisWithAnnotationsAnnotationsAdditionalPropertyType1 property), [1] (MGnifyAnalysisWithAnnotationsMetadataType0 property), [1] (MGnifyAnalysisWithAnnotationsQualityControlSummaryType0 property), [1] (MGnifyDownloadFileIndexFile property), [1] (MGnifyGenomeCatalogueDownloadFile property), [1] (MGnifyGenomeDownloadFile property), [1] (MGnifyPublication property), [1] (MGnifyPublicationDetail property), [1] (MGnifyPublicationDetailMetadata property), [1] (MGnifyPublicationMetadata property), [1] (MGnifySample property), [1] (MGnifySampleDetail property), [1] (MGnifySampleDetailMetadata property), [1] (MGnifySampleWithMetadata property), [1] (MGnifySampleWithMetadataMetadata property), [1] (MGnifyStudy property), [1] (MGnifyStudyAccessionLookup property), [1] (MGnifyStudyDetail property), [1] (MGnifyStudyDetailMetadata property), [1] (MGnifyStudyDownloadFile property), [1] (MGnifyStudyMetadata property), [1] (NinjaPaginationResponseSchemaAdditionalContainedGenomeSchema property), [1] (NinjaPaginationResponseSchemaAnalysedRun property), [1] (NinjaPaginationResponseSchemaAssembly property), [1] (NinjaPaginationResponseSchemaAssemblyDetail property), [1] (NinjaPaginationResponseSchemaBiome property), [1] (NinjaPaginationResponseSchemaGenomeAssemblyLinkSchema property), [1] (NinjaPaginationResponseSchemaGenomeCatalogueList property), [1] (NinjaPaginationResponseSchemaGenomeList property), [1] (NinjaPaginationResponseSchemaMGnifyAnalysis property), [1] (NinjaPaginationResponseSchemaMGnifyAnalysisDetail property), [1] (NinjaPaginationResponseSchemaMGnifyAnalysisTypedAnnotation property), [1] (NinjaPaginationResponseSchemaMGnifyPublication property), [1] (NinjaPaginationResponseSchemaMGnifySample property), [1] (NinjaPaginationResponseSchemaMGnifySampleWithMetadata property), [1] (NinjaPaginationResponseSchemaMGnifyStudy property), [1] (NinjaPaginationResponseSchemaSuperStudy property), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotal property), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAt property), [1] (OrderByFilterLiteralpublishedYearPublishedYear property), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAt property), [1] (PublicationAnnotations property), [1] (PublicationListFilters property), [1] (RunListFilters property), [1] (SampleListFilters property), [1] (Schema property), [1] (StudyListFilters property), [1] (SuperStudy property), [1] (SuperStudyDetail property), [1] (TokenVerifyInputSchema property), [1] (WebinTokenRefreshRequest property), [1] (WebinTokenRequest property), [1] (WebinTokenResponse property), [1] additional_properties (AdditionalContainedGenomeSchema attribute), [1] (AnalysedRun attribute), [1] (AnalysedRunDetail attribute), [1] (AnnotatedResult attribute), [1] (Assembly attribute), [1] (AssemblyDetail attribute), [1] (AssemblyDetailMetadataType0 attribute), [1] (AssemblyDetailStatusType0 attribute), [1] (Biome attribute), [1] (BiomeListFilters attribute), [1] (CobsMatch attribute), [1] (DownloadFileIndexFile attribute), [1] (EuropePmcAnnotation attribute), [1] (EuropePmcAnnotationGroup attribute), [1] (EuropePmcAnnotationMention attribute), [1] (EuropePmcAnnotationTag attribute), [1] (GenomeAssemblyLinkSchema attribute), [1] (GenomeCatalogueBase attribute), [1] (GenomeCatalogueBaseOtherStatsType0 attribute), [1] (GenomeCatalogueDetail attribute), [1] (GenomeCatalogueDetailOtherStatsType0 attribute), [1] (GenomeCatalogueList attribute), [1] (GenomeCatalogueListOtherStatsType0 attribute), [1] (GenomeDetail attribute), [1] (GenomeFilters attribute), [1] (GenomeFragmentSearchOut attribute), [1] (GenomeList attribute), [1] (GenomeSchema attribute), [1] (GenomeSearchData attribute), [1] (GenomeWithAnnotations attribute), [1] (GenomeWithAnnotationsAnnotations attribute), [1] (Input attribute), [1] (MGnifyAnalysis attribute), [1] (MGnifyAnalysisDetail attribute), [1] (MGnifyAnalysisDetailMetadataType0 attribute), [1] (MGnifyAnalysisDetailQualityControlSummaryType0 attribute), [1] (MGnifyAnalysisDownloadFile attribute), [1] (MGnifyAnalysisTypedAnnotation attribute), [1] (MGnifyAnalysisWithAnnotations attribute), [1] (MGnifyAnalysisWithAnnotationsAnnotations attribute), [1] (MGnifyAnalysisWithAnnotationsAnnotationsAdditionalPropertyType1 attribute), [1] (MGnifyAnalysisWithAnnotationsMetadataType0 attribute), [1] (MGnifyAnalysisWithAnnotationsQualityControlSummaryType0 attribute), [1] (MGnifyDownloadFileIndexFile attribute), [1] (MGnifyGenomeCatalogueDownloadFile attribute), [1] (MGnifyGenomeDownloadFile attribute), [1] (MGnifyPublication attribute), [1] (MGnifyPublicationDetail attribute), [1] (MGnifyPublicationDetailMetadata attribute), [1] (MGnifyPublicationMetadata attribute), [1] (MGnifySample attribute), [1] (MGnifySampleDetail attribute), [1] (MGnifySampleDetailMetadata attribute), [1] (MGnifySampleWithMetadata attribute), [1] (MGnifySampleWithMetadataMetadata attribute), [1] (MGnifyStudy attribute), [1] (MGnifyStudyAccessionLookup attribute), [1] (MGnifyStudyDetail attribute), [1] (MGnifyStudyDetailMetadata attribute), [1] (MGnifyStudyDownloadFile attribute), [1] (MGnifyStudyMetadata attribute), [1] (NinjaPaginationResponseSchemaAdditionalContainedGenomeSchema attribute), [1] (NinjaPaginationResponseSchemaAnalysedRun attribute), [1] (NinjaPaginationResponseSchemaAssembly attribute), [1] (NinjaPaginationResponseSchemaAssemblyDetail attribute), [1] (NinjaPaginationResponseSchemaBiome attribute), [1] (NinjaPaginationResponseSchemaGenomeAssemblyLinkSchema attribute), [1] (NinjaPaginationResponseSchemaGenomeCatalogueList attribute), [1] (NinjaPaginationResponseSchemaGenomeList attribute), [1] (NinjaPaginationResponseSchemaMGnifyAnalysis attribute), [1] (NinjaPaginationResponseSchemaMGnifyAnalysisDetail attribute), [1] (NinjaPaginationResponseSchemaMGnifyAnalysisTypedAnnotation attribute), [1] (NinjaPaginationResponseSchemaMGnifyPublication attribute), [1] (NinjaPaginationResponseSchemaMGnifySample attribute), [1] (NinjaPaginationResponseSchemaMGnifySampleWithMetadata attribute), [1] (NinjaPaginationResponseSchemaMGnifyStudy attribute), [1] (NinjaPaginationResponseSchemaSuperStudy attribute), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotal attribute), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAt attribute), [1] (OrderByFilterLiteralpublishedYearPublishedYear attribute), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAt attribute), [1] (PublicationAnnotations attribute), [1] (PublicationListFilters attribute), [1] (RunListFilters attribute), [1] (SampleListFilters attribute), [1] (Schema attribute), [1] (StudyListFilters attribute), [1] (SuperStudy attribute), [1] (SuperStudyDetail attribute), [1] (TokenVerifyInputSchema attribute), [1] (WebinTokenRefreshRequest attribute), [1] (WebinTokenRequest attribute), [1] (WebinTokenResponse attribute), [1] AdditionalContainedGenomeSchema (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.additional_contained_genome_schema) adownload() (DWCTaxaMGazine method) (MGazine method), [1] (TaxaMGazine method) adownload_all() (DWCTaxaMGazine method) (MGazine method), [1] (TaxaMGazine method) aenrich() (BioSampler method), [1] (MGnetizer method), [1] aenrich_details() (Analyses method), [1], [2] (Assemblies method), [1], [2] (Biomes method), [1], [2] (Catalogues method), [1], [2] (Genomes method), [1], [2] (MGnifyList method) (PrivateStudies method) (Publications method), [1], [2] (Runs method), [1], [2] (Samples method), [1], [2] (Studies method), [1], [2] AGE (ENASampleFields attribute), [1] aget() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] aget_all() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] aget_detail() (Analyses method), [1], [2] (Assemblies method), [1], [2] (Biomes method), [1], [2] (Catalogues method), [1], [2] (Genomes method), [1], [2] (MGnifyList method) (PrivateStudies method) (Publications method), [1], [2] (Runs method), [1], [2] (Samples method), [1], [2] (Studies method), [1], [2]

aget_list() (AnalysisDetail method), [1] (AssemblyDetail method), [1] (BiomeDetail method), [1] (CatalogueDetail method), [1] (GenomeDetail method), [1] (MGnifyDetail method) (PublicationDetail method), [1] (RunDetail method), [1] (SampleDetail method), [1] (StudyDetail method), [1] aiter_details (Analyses property), [1], [2] (Assemblies property), [1], [2] (Biomes property), [1], [2] (Catalogues property), [1], [2] (Genomes property), [1], [2] (MGnifyList property) (PrivateStudies property) (Publications property), [1], [2] (Runs property), [1], [2] (Samples property), [1], [2] (Studies property), [1], [2] alias (MGnifyAnalysisDownloadFile attribute), [1], [2], [3] (MGnifyGenomeCatalogueDownloadFile attribute), [1] (MGnifyGenomeDownloadFile attribute), [1], [2], [3] (MGnifyStudyDownloadFile attribute), [1], [2], [3] aliases (DWCTaxaMGazine property) (MGazine attribute), [1] (MGazine property), [1] (TaxaMGazine property) all_ids (BioSampler attribute), [1] (BioSampler property), [1] (MGnetizer attribute), [1] (MGnetizer property), [1] aload_cache() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (BioSampler method), [1] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (CheckpointMixin method) (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnetizer method), [1] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] ALTITUDE (ENASampleFields attribute), [1] AMPLI (ExperimentTypes attribute), [1] AnalysedRun (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.analysed_run) AnalysedRunDetail (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.analysed_run_detail) Analyses (class in mgnipy.proxies) (class in mgnipy.V2) (class in mgnipy.V2.proxies.analyses) ANALYSIS_RO_CRATE (DownloadType attribute), [1] AnalysisDetail (class in mgnipy.proxies) (class in mgnipy.V2.proxies.analyses) AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.analysis_get_mgnify_analysis_with_annotations_of_type_m_gnify_functional_analysis_annotation_type) AnnotatedResult (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.annotated_result) annotation_text (EuropePmcAnnotation attribute), [1], [2], [3] annotation_type (EuropePmcAnnotationGroup attribute), [1], [2], [3] annotations (EuropePmcAnnotationGroup attribute), [1], [2], [3] (GenomeWithAnnotations attribute), [1], [2], [3] (MGnifyAnalysisWithAnnotations attribute), [1], [2], [3] apage() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] api_version (MGnipyConfig attribute) append_biosamples_metadata() (DWCTaxaMGazine method) (MetadataSettersMixin method) (MGazine method), [1] (MTG method), [1] (TaxaMGazine method) append_mgnify_analyses() (DWCTaxaMGazine method) (MetadataSettersMixin method) (MGazine method), [1] (MTG method), [1] (TaxaMGazine method) append_mgnify_assemblies() (DWCTaxaMGazine method) (MetadataSettersMixin method) (MGazine method), [1] (MTG method), [1] (TaxaMGazine method) append_mgnify_runs() (DWCTaxaMGazine method) (MetadataSettersMixin method) (MGazine method), [1] (MTG method), [1] (TaxaMGazine method) append_mgnify_samples() (DWCTaxaMGazine method) (MetadataSettersMixin method) (MGazine method), [1] (MTG method), [1] (TaxaMGazine method) append_mgnify_studies() (DWCTaxaMGazine method) (MetadataSettersMixin method) (MGazine method), [1] (MTG method), [1] (TaxaMGazine method) append_obs() (DWCTaxaMGazine method) (MetadataSettersMixin method) (MGazine method), [1] (MTG method), [1] (TaxaMGazine method) append_result() (MGnifyMetadata method) arequest_page() (QueryExecutor method) args (UnexpectedStatus attribute) ASSEM (ExperimentTypes attribute), [1] assembler_name (AssemblyDetail attribute), [1], [2], [3] assembler_version (AssemblyDetail attribute), [1], [2], [3] Assemblies (class in mgnipy.proxies) (class in mgnipy.V2) (class in mgnipy.V2.proxies.assemblies) Assembly (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.assembly) assembly (MGnifyAnalysis attribute), [1], [2], [3] (MGnifyAnalysisDetail attribute), [1], [2], [3] (MGnifyAnalysisWithAnnotations attribute), [1], [2], [3] ASSEMBLY_QUALITY (ENASampleFields attribute), [1] ASSEMBLY_SOFTWARE (ENASampleFields attribute), [1] assembly_study_accession (AssemblyDetail attribute), [1], [2], [3] AssemblyDetail (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.assembly_detail) (class in mgnipy.proxies) (class in mgnipy.V2.proxies.assemblies) AssemblyDetailMetadataType0 (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.assembly_detail_metadata_type_0) AssemblyDetailStatusType0 (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.assembly_detail_status_type_0) async_httpx_client (Analyses property), [1], [2] (AnalysisDetail property), [1] (Assemblies property), [1], [2] (AssemblyDetail property), [1] (BiomeDetail property), [1] (Biomes property), [1], [2] (BioSampler property), [1] (CatalogueDetail property), [1] (Catalogues property), [1], [2] (ClientManagerMixin property) (DWCTaxaMGazine property) (GenomeDetail property), [1] (Genomes property), [1], [2] (MGazine property), [1] (MGnetizer property), [1] (MGnifier property), [1], [2] (MGnifyDetail property) (MGnifyList property) (MGnipy property), [1] (PrivateStudies property) (PublicationDetail property), [1] (Publications property), [1], [2] (RunDetail property), [1] (Runs property), [1], [2] (SampleDetail property), [1] (Samples property), [1], [2] (Studies property), [1], [2] (StudyDetail property), [1] (TaxaMGazine property) asyncio() (in module mgnipy.emgapi_v2_client.api.analyses.analysis_get_mgnify_analysis_with_annotations) (in module mgnipy.emgapi_v2_client.api.analyses.analysis_get_mgnify_analysis_with_annotations_of_type) (in module mgnipy.emgapi_v2_client.api.analyses.get_mgnify_analysis) (in module mgnipy.emgapi_v2_client.api.analyses.list_mgnify_analyses) (in module mgnipy.emgapi_v2_client.api.assemblies.get_assembly) (in module mgnipy.emgapi_v2_client.api.assemblies.list_additional_contained_genomes_for_assembly) (in module mgnipy.emgapi_v2_client.api.assemblies.list_analyses_for_assembly) (in module mgnipy.emgapi_v2_client.api.assemblies.list_assemblies) (in module mgnipy.emgapi_v2_client.api.assemblies.list_genome_links_for_assembly) (in module mgnipy.emgapi_v2_client.api.authentication.token_obtain_sliding) (in module mgnipy.emgapi_v2_client.api.authentication.token_refresh_sliding) (in module mgnipy.emgapi_v2_client.api.authentication.token_verify) (in module mgnipy.emgapi_v2_client.api.genomes.genome_fragment_search) (in module mgnipy.emgapi_v2_client.api.genomes.get_genome_annotations) (in module mgnipy.emgapi_v2_client.api.genomes.get_genome_catalogue) (in module mgnipy.emgapi_v2_client.api.genomes.get_genome_catalogue_genomes) (in module mgnipy.emgapi_v2_client.api.genomes.get_mgnify_genome) (in module mgnipy.emgapi_v2_client.api.genomes.list_genome_catalogues) (in module mgnipy.emgapi_v2_client.api.genomes.list_mgnify_genomes) (in module mgnipy.emgapi_v2_client.api.miscellaneous.list_mgnify_biomes) (in module mgnipy.emgapi_v2_client.api.private_data.list_private_mgnify_studies) (in module mgnipy.emgapi_v2_client.api.publications.get_mgnify_publication) (in module mgnipy.emgapi_v2_client.api.publications.get_mgnify_publication_annotations) (in module mgnipy.emgapi_v2_client.api.publications.list_mgnify_publications) (in module mgnipy.emgapi_v2_client.api.runs.get_analysed_run) (in module mgnipy.emgapi_v2_client.api.runs.list_analysed_runs) (in module mgnipy.emgapi_v2_client.api.runs.list_runs_analyses) (in module mgnipy.emgapi_v2_client.api.runs.list_runs_assemblies) (in module mgnipy.emgapi_v2_client.api.samples.get_mgnify_sample) (in module mgnipy.emgapi_v2_client.api.samples.list_mgnify_samples) (in module mgnipy.emgapi_v2_client.api.samples.list_sample_assemblies) (in module mgnipy.emgapi_v2_client.api.samples.list_sample_runs) (in module mgnipy.emgapi_v2_client.api.studies.get_mgnify_study) (in module mgnipy.emgapi_v2_client.api.studies.get_mgnify_study_accession_by_insdc_accession) (in module mgnipy.emgapi_v2_client.api.studies.get_super_study) (in module mgnipy.emgapi_v2_client.api.studies.list_mgnify_studies) (in module mgnipy.emgapi_v2_client.api.studies.list_mgnify_study_analyses) (in module mgnipy.emgapi_v2_client.api.studies.list_mgnify_study_publications) (in module mgnipy.emgapi_v2_client.api.studies.list_mgnify_study_samples) (in module mgnipy.emgapi_v2_client.api.studies.list_super_studies) asyncio_detailed() (in module mgnipy.emgapi_v2_client.api.analyses.analysis_get_mgnify_analysis_with_annotations) (in module mgnipy.emgapi_v2_client.api.analyses.analysis_get_mgnify_analysis_with_annotations_of_type) (in module mgnipy.emgapi_v2_client.api.analyses.get_mgnify_analysis) (in module mgnipy.emgapi_v2_client.api.analyses.list_mgnify_analyses) (in module mgnipy.emgapi_v2_client.api.assemblies.get_assembly) (in module mgnipy.emgapi_v2_client.api.assemblies.list_additional_contained_genomes_for_assembly) (in module mgnipy.emgapi_v2_client.api.assemblies.list_analyses_for_assembly) (in module mgnipy.emgapi_v2_client.api.assemblies.list_assemblies) (in module mgnipy.emgapi_v2_client.api.assemblies.list_genome_links_for_assembly) (in module mgnipy.emgapi_v2_client.api.authentication.token_obtain_sliding) (in module mgnipy.emgapi_v2_client.api.authentication.token_refresh_sliding) (in module mgnipy.emgapi_v2_client.api.authentication.token_verify) (in module mgnipy.emgapi_v2_client.api.genomes.genome_fragment_search) (in module mgnipy.emgapi_v2_client.api.genomes.get_genome_annotations) (in module mgnipy.emgapi_v2_client.api.genomes.get_genome_catalogue) (in module mgnipy.emgapi_v2_client.api.genomes.get_genome_catalogue_genomes) (in module mgnipy.emgapi_v2_client.api.genomes.get_mgnify_genome) (in module mgnipy.emgapi_v2_client.api.genomes.list_genome_catalogues) (in module mgnipy.emgapi_v2_client.api.genomes.list_mgnify_genomes) (in module mgnipy.emgapi_v2_client.api.miscellaneous.list_mgnify_biomes) (in module mgnipy.emgapi_v2_client.api.private_data.list_private_mgnify_studies) (in module mgnipy.emgapi_v2_client.api.publications.get_mgnify_publication) (in module mgnipy.emgapi_v2_client.api.publications.get_mgnify_publication_annotations) (in module mgnipy.emgapi_v2_client.api.publications.list_mgnify_publications) (in module mgnipy.emgapi_v2_client.api.runs.get_analysed_run) (in module mgnipy.emgapi_v2_client.api.runs.list_analysed_runs) (in module mgnipy.emgapi_v2_client.api.runs.list_runs_analyses) (in module mgnipy.emgapi_v2_client.api.runs.list_runs_assemblies) (in module mgnipy.emgapi_v2_client.api.samples.get_mgnify_sample) (in module mgnipy.emgapi_v2_client.api.samples.list_mgnify_samples) (in module mgnipy.emgapi_v2_client.api.samples.list_sample_assemblies) (in module mgnipy.emgapi_v2_client.api.samples.list_sample_runs) (in module mgnipy.emgapi_v2_client.api.studies.get_mgnify_study) (in module mgnipy.emgapi_v2_client.api.studies.get_mgnify_study_accession_by_insdc_accession) (in module mgnipy.emgapi_v2_client.api.studies.get_super_study) (in module mgnipy.emgapi_v2_client.api.studies.list_mgnify_studies) (in module mgnipy.emgapi_v2_client.api.studies.list_mgnify_study_analyses) (in module mgnipy.emgapi_v2_client.api.studies.list_mgnify_study_publications) (in module mgnipy.emgapi_v2_client.api.studies.list_mgnify_study_samples) (in module mgnipy.emgapi_v2_client.api.studies.list_super_studies) auth_header_name (AuthenticatedClient attribute), [1], [2], [3], [4], [5] auth_token (MGnipyConfig attribute) AuthenticatedClient (class in mgnipy.emgapi_v2_client) (class in mgnipy.emgapi_v2_client.client) (class in mgnipy.V2) available_metadata_sets (DWCTaxaMGazine property) (MGazine property), [1] (MTG property), [1] (TaxaMGazine property) awrite_results() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (BioSampler method), [1] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (CheckpointMixin method) (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnetizer method), [1] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1]

B

base_url (Analyses property), [1], [2] (AnalysisDetail property), [1] (Assemblies property), [1], [2] (AssemblyDetail property), [1] (BiomeDetail property), [1] (Biomes property), [1], [2] (CatalogueDetail property), [1] (Catalogues property), [1], [2] (GenomeDetail property), [1] (Genomes property), [1], [2] (MGnifier property), [1], [2] (MGnifyDetail property) (MGnifyList property) (MGnipyConfig attribute) (PrivateStudies property) (PublicationDetail property), [1] (Publications property), [1], [2] (QuerySet attribute) (QuerySet property) (RunDetail property), [1] (Runs property), [1], [2] (SampleDetail property), [1] (Samples property), [1], [2] (Studies property), [1], [2] (StudyDetail property), [1] BINNING_SOFTWARE (ENASampleFields attribute), [1] BIO_MATERIAL (ENASampleFields attribute), [1] BIOM (DownloadFileType attribute), [1] Biome (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.biome) biome (GenomeCatalogueBase attribute), [1], [2], [3] (GenomeCatalogueDetail attribute), [1], [2], [3] (GenomeCatalogueList attribute), [1], [2], [3] (GenomeDetail attribute), [1], [2], [3] (GenomeList attribute), [1], [2], [3] (MGnifySample attribute), [1], [2], [3] (MGnifySampleDetail attribute), [1], [2], [3] (MGnifySampleWithMetadata attribute), [1], [2], [3] (MGnifyStudy attribute), [1], [2], [3] (MGnifyStudyDetail attribute), [1], [2], [3] biome_lineage (BiomeListFilters attribute), [1], [2], [3] (GenomeFilters attribute), [1], [2], [3] (SampleListFilters attribute), [1], [2], [3] (StudyListFilters attribute), [1], [2], [3] biome_name (Biome attribute), [1], [2], [3] BiomeDetail (class in mgnipy.proxies) (class in mgnipy.V2.proxies.biomes) BiomeListFilters (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.biome_list_filters)

Biomes (class in mgnipy.proxies) (class in mgnipy.V2) (class in mgnipy.V2.proxies.biomes) BiomesTreeMixin (class in mgnipy.V2.mixins) biosampler (Assemblies property), [1], [2] (AssemblyDetail property), [1] BioSampler (class in mgnipy) (class in mgnipy.V2.collect.biosampler) biosampler (RunDetail property), [1] (Runs property), [1], [2] (SampleDetail property), [1] (Samples property), [1], [2] biosamples_metadata (DWCTaxaMGazine property) (MetadataSettersMixin property) (MGazine property), [1] (MTG property), [1] (TaxaMGazine property) BREED (ENAStudyFields attribute), [1] BROAD_SCALE_ENVIRONMENTAL_CONTEXT (ENASampleFields attribute), [1] BROKER_NAME (ENASampleFields attribute), [1] (ENAStudyFields attribute), [1] build_queries() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (QuerySet method) (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] by_downloads_col() (DWCTaxaMGazine method) (MGazine method), [1] (TaxaMGazine method)

C

cache_dir (Analyses property), [1], [2] (AnalysisDetail property), [1] (Assemblies property), [1], [2] (AssemblyDetail property), [1] (BiomeDetail property), [1] (Biomes property), [1], [2] (CatalogueDetail property), [1] (Catalogues property), [1], [2] (GenomeDetail property), [1] (Genomes property), [1], [2] (MGnifier property), [1], [2] (MGnifyDetail property) (MGnifyList property) (MGnipyConfig attribute) (PrivateStudies property) (PublicationDetail property), [1] (Publications property), [1], [2] (RunDetail property), [1] (Runs property), [1], [2] (SampleDetail property), [1] (Samples property), [1], [2] (Studies property), [1], [2] (StudyDetail property), [1] cache_key (Analyses property), [1], [2] (AnalysisDetail property), [1] (Assemblies property), [1], [2] (AssemblyDetail property), [1] (BiomeDetail property), [1] (Biomes property), [1], [2] (BioSampler property), [1] (CatalogueDetail property), [1] (Catalogues property), [1], [2] (CheckpointMixin property) (GenomeDetail property), [1] (Genomes property), [1], [2] (MGnetizer property), [1] (MGnifier property), [1], [2] (MGnifyDetail property) (MGnifyList property) (PrivateStudies property) (PublicationDetail property), [1] (Publications property), [1], [2] (RunDetail property), [1] (Runs property), [1], [2] (SampleDetail property), [1] (Samples property), [1], [2] (Studies property), [1], [2] (StudyDetail property), [1] cache_path (Analyses property), [1], [2] (AnalysisDetail property), [1] (Assemblies property), [1], [2] (AssemblyDetail property), [1] (BiomeDetail property), [1] (Biomes property), [1], [2] (BioSampler property), [1] (CatalogueDetail property), [1] (Catalogues property), [1], [2] (CheckpointMixin property) (GenomeDetail property), [1] (Genomes property), [1], [2] (MGnetizer property), [1] (MGnifier property), [1], [2] (MGnifyDetail property) (MGnifyList property) (PrivateStudies property) (PublicationDetail property), [1] (Publications property), [1], [2] (RunDetail property), [1] (Runs property), [1], [2] (SampleDetail property), [1] (Samples property), [1], [2] (Studies property), [1], [2] (StudyDetail property), [1] cani (AdditionalContainedGenomeSchema attribute), [1], [2], [3] capitalize() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] casefold() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] catalogue (GenomeDetail attribute), [1], [2], [3] catalogue_biome_label (GenomeCatalogueBase attribute), [1], [2], [3] (GenomeCatalogueDetail attribute), [1], [2], [3] (GenomeCatalogueList attribute), [1], [2], [3] catalogue_id (GenomeCatalogueBase attribute), [1], [2], [3] (GenomeCatalogueDetail attribute), [1], [2], [3] (GenomeCatalogueList attribute), [1], [2], [3] (GenomeDetail attribute), [1], [2], [3] (GenomeList attribute), [1], [2], [3] (GenomeSchema attribute), [1], [2], [3] catalogue_type (GenomeCatalogueBase attribute), [1], [2], [3] (GenomeCatalogueDetail attribute), [1], [2], [3] (GenomeCatalogueList attribute), [1], [2], [3] catalogue_version (GenomeSchema attribute), [1], [2], [3] CatalogueDetail (class in mgnipy.proxies) (class in mgnipy.V2.proxies.catalogues) Catalogues (class in mgnipy.proxies) (class in mgnipy.V2) (class in mgnipy.V2.proxies.catalogues) CELL_LINE (ENASampleFields attribute), [1] CELL_TYPE (ENASampleFields attribute), [1] center() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] CENTER_NAME (ENASampleFields attribute), [1] (ENAStudyFields attribute), [1] CHECKLIST (ENASampleFields attribute), [1] CheckpointMixin (class in mgnipy.V2.mixins) child_resource (Analyses attribute), [1] (Assemblies attribute), [1], [2] (Biomes attribute), [1], [2] (Catalogues attribute), [1], [2] (Genomes attribute), [1], [2] (MGnifyList attribute) (PrivateStudies attribute) (Publications attribute), [1], [2] (Runs attribute), [1], [2] (Samples attribute), [1], [2] (Studies attribute), [1], [2]

clear_cache() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (BioSampler method), [1] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (CheckpointMixin method) (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnetizer method), [1] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] clear_subcaches() (MGnipy method), [1] Client (class in mgnipy.emgapi_v2_client) (class in mgnipy.emgapi_v2_client.client) (class in mgnipy.V2) ClientManagerMixin (class in mgnipy.V2.mixins) close() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (BioSampler method), [1] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (ClientManagerMixin method) (DWCTaxaMGazine method) (GenomeDetail method), [1] (Genomes method), [1], [2] (MGazine method), [1] (MGnetizer method), [1] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (MGnipy method), [1] (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] (TaxaMGazine method) cobs (AnnotatedResult attribute), [1], [2], [3] CobsMatch (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.cobs_match) CODING_SEQUENCES (DownloadType attribute), [1] COLLECTED_BY (ENASampleFields attribute), [1] COLLECTION_DATE (ENASampleFields attribute), [1] COLLECTION_DATE_END (ENASampleFields attribute), [1] COLLECTION_DATE_START (ENASampleFields attribute), [1] completeness (GenomeDetail attribute), [1], [2], [3] (GenomeList attribute), [1], [2], [3] COMPLETENESS (GetGenomeCatalogueGenomesOrderType0 attribute), [1] (ListMgnifyGenomesOrderType0 attribute), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 attribute), [1] COMPLETENESS_SCORE (ENASampleFields attribute), [1] config (Analyses attribute), [1] (AnalysisDetail attribute), [1] (Assemblies attribute), [1], [2] (AssemblyDetail attribute), [1] (BiomeDetail attribute), [1] (Biomes attribute), [1], [2] (CatalogueDetail attribute), [1] (Catalogues attribute), [1], [2] (GenomeDetail attribute), [1] (Genomes attribute), [1], [2] (MGnifier attribute), [1] (MGnifyDetail attribute) (MGnifyList attribute) (PrivateStudies attribute) (PublicationDetail attribute), [1] (Publications attribute), [1], [2] (QuerySet attribute), [1] (RunDetail attribute), [1] (Runs attribute), [1], [2] (SampleDetail attribute), [1] (Samples attribute), [1], [2] (Studies attribute), [1], [2] (StudyDetail attribute), [1] construct() (MGnipyConfig class method) containment (AdditionalContainedGenomeSchema attribute), [1], [2], [3] contamination (GenomeDetail attribute), [1], [2], [3] (GenomeList attribute), [1], [2], [3] CONTAMINATION (GetGenomeCatalogueGenomesOrderType0 attribute), [1] (ListMgnifyGenomesOrderType0 attribute), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 attribute), [1] CONTAMINATION_SCORE (ENASampleFields attribute), [1] content (Response attribute) copy() (MGnipyConfig method) count (Analyses property), [1], [2] (AnalysisDetail property), [1] (Assemblies property), [1], [2] (AssemblyDetail property), [1] (BiomeDetail property), [1] (Biomes property), [1], [2] (CatalogueDetail property), [1] (Catalogues property), [1], [2] (GenomeDetail property), [1] (Genomes property), [1], [2] (MGnifier property), [1], [2] (MGnifyAnalysisTypedAnnotation attribute), [1], [2], [3] (MGnifyDetail property) (MGnifyList property) (NinjaPaginationResponseSchemaAdditionalContainedGenomeSchema attribute), [1], [2], [3] (NinjaPaginationResponseSchemaAnalysedRun attribute), [1], [2], [3] (NinjaPaginationResponseSchemaAssembly attribute), [1], [2], [3] (NinjaPaginationResponseSchemaAssemblyDetail attribute), [1], [2], [3] (NinjaPaginationResponseSchemaBiome attribute), [1], [2], [3] (NinjaPaginationResponseSchemaGenomeAssemblyLinkSchema attribute), [1], [2], [3] (NinjaPaginationResponseSchemaGenomeCatalogueList attribute), [1], [2], [3] (NinjaPaginationResponseSchemaGenomeList attribute), [1], [2], [3] (NinjaPaginationResponseSchemaMGnifyAnalysis attribute), [1], [2], [3] (NinjaPaginationResponseSchemaMGnifyAnalysisDetail attribute), [1], [2], [3] (NinjaPaginationResponseSchemaMGnifyAnalysisTypedAnnotation attribute), [1], [2], [3] (NinjaPaginationResponseSchemaMGnifyPublication attribute), [1], [2], [3] (NinjaPaginationResponseSchemaMGnifySample attribute), [1], [2], [3] (NinjaPaginationResponseSchemaMGnifySampleWithMetadata attribute), [1], [2], [3] (NinjaPaginationResponseSchemaMGnifyStudy attribute), [1], [2], [3] (NinjaPaginationResponseSchemaSuperStudy attribute), [1], [2], [3] (PrivateStudies property) (PublicationDetail property), [1] (Publications property), [1], [2] (QuerySet attribute) (QuerySet property) (RunDetail property), [1] (Runs property), [1], [2] (SampleDetail property), [1] (Samples property), [1], [2] (Studies property), [1], [2] (StudyDetail property), [1] count() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] COUNTRY (ENASampleFields attribute), [1] CSI (DownloadFileIndexFileIndexType attribute), [1] (MGnifyDownloadFileIndexFileIndexType attribute), [1] CSV (DownloadFileType attribute), [1] CULTIVAR (ENASampleFields attribute), [1] (ENAStudyFields attribute), [1] CULTURE_COLLECTION (ENASampleFields attribute), [1]

D

data (GenomeFragmentSearchOut attribute), [1], [2], [3] (MGnifyMetadata property) (ResultsHandler property) DATAHUB (ENASampleFields attribute), [1] (ENAStudyFields attribute), [1] datasets (Analyses property), [1], [2] (AnalysisDetail property), [1] (MGnetizer property), [1] (PrivateStudies property) (Studies property), [1], [2] (StudyDetail property), [1] DEPTH (ENASampleFields attribute), [1] describe_endpoint() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (DescribeEmgapiModule method) (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] describe_relationships() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] describe_resource() (MGnipy method), [1] describe_resources() (MGnipy method), [1] DescribeEmgapiModule (class in mgnipy.V2.mgnifier.describe) DESCRIPTION (ENASampleFields attribute), [1] (ENAStudyFields attribute), [1] description (EuropePmcAnnotationGroup attribute), [1], [2], [3] (GenomeCatalogueBase attribute), [1], [2], [3] (GenomeCatalogueDetail attribute), [1], [2], [3] (GenomeCatalogueList attribute), [1], [2], [3] (MGnifyAnalysisTypedAnnotation attribute), [1], [2], [3] (SuperStudy attribute), [1], [2], [3] (SuperStudyDetail attribute), [1], [2], [3] DEV_STAGE (ENASampleFields attribute), [1] dict() (MGnipyConfig method) DISEASE (ENASampleFields attribute), [1] download() (DWCTaxaMGazine method) (MGazine method), [1] (TaxaMGazine method) download_all() (DWCTaxaMGazine method) (MGazine method), [1] (TaxaMGazine method) download_group (MGnifyAnalysisDownloadFile attribute), [1], [2], [3] (MGnifyGenomeCatalogueDownloadFile attribute), [1] (MGnifyGenomeDownloadFile attribute), [1], [2], [3] (MGnifyStudyDownloadFile attribute), [1], [2], [3] download_type (MGnifyAnalysisDownloadFile attribute), [1], [2], [3] (MGnifyGenomeCatalogueDownloadFile attribute), [1] (MGnifyGenomeDownloadFile attribute), [1], [2], [3] (MGnifyStudyDownloadFile attribute), [1], [2], [3]

DownloadFileIndexFile (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.download_file_index_file) DownloadFileIndexFileIndexType (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.download_file_index_file_index_type) DownloadFileType (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.download_file_type) downloads (Analyses property), [1], [2] (AnalysisDetail property), [1] (Assemblies property), [1], [2] (AssemblyDetail property), [1] (BiomeDetail property), [1] (Biomes property), [1], [2] (CatalogueDetail property), [1] (Catalogues property), [1], [2] (GenomeCatalogueBase attribute), [1], [2], [3] (GenomeCatalogueDetail attribute), [1], [2], [3] (GenomeCatalogueList attribute), [1], [2], [3] (GenomeDetail attribute), [1], [2], [3] (GenomeDetail property), [1] (Genomes property), [1], [2] (MGazine attribute), [1] (MGnetizer property), [1] (MGnifyAnalysisDetail attribute), [1], [2], [3] (MGnifyAnalysisWithAnnotations attribute), [1], [2], [3] (MGnifyDetail property) (MGnifyList property) (MGnifyMetadata property) (MGnifyStudyDetail attribute), [1], [2], [3] (PrivateStudies property) (PublicationDetail property), [1] (Publications property), [1], [2] (RunDetail property), [1] (Runs property), [1], [2] (SampleDetail property), [1] (Samples property), [1], [2] (Studies property), [1], [2] (StudyDetail property), [1] downloads_df (MGazine attribute), [1] downloads_df() (Analyses method), [1], [2] (AnalysisDetail method), [1] (AssemblyDetail method), [1] (BiomeDetail method), [1] (CatalogueDetail method), [1] (DWCTaxaMGazine method) (GenomeDetail method), [1] (MGazine method), [1] (MGnifyDetail method) (PrivateStudies method) (PublicationDetail method), [1] (RunDetail method), [1] (SampleDetail method), [1] (Studies method), [1], [2] (StudyDetail method), [1] (TaxaMGazine method) DownloadType (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.download_type) DRAFT (GenomeCatalogueBaseStatus attribute), [1] (GenomeCatalogueDetailStatus attribute), [1] (GenomeCatalogueListStatus attribute), [1] dry_run() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] DWCTaxaMGazine (class in mgnipy.V2.datasets.taxonomic)

E

ECOTYPE (ENASampleFields attribute), [1] eggnog_coverage (GenomeDetail attribute), [1], [2], [3] ELEVATION (ENASampleFields attribute), [1] emgapi_docs (DescribeEmgapiModule property) emgapi_handler (Analyses attribute), [1] (AnalysisDetail attribute), [1] (Assemblies attribute), [1], [2] (AssemblyDetail attribute), [1] (BiomeDetail attribute), [1] (Biomes attribute), [1], [2] (CatalogueDetail attribute), [1] (Catalogues attribute), [1], [2] (GenomeDetail attribute), [1] (Genomes attribute), [1], [2] (MGnifier attribute), [1] (MGnifyDetail attribute) (MGnifyList attribute) (PrivateStudies attribute) (PublicationDetail attribute), [1] (Publications attribute), [1], [2] (QuerySet attribute), [1] (RunDetail attribute), [1] (Runs attribute), [1], [2] (SampleDetail attribute), [1] (Samples attribute), [1], [2] (Studies attribute), [1], [2] (StudyDetail attribute), [1] emgapi_resource (DescribeEmgapiModule property) ena_accessions (MGnifySample attribute), [1], [2], [3] (MGnifySampleDetail attribute), [1], [2], [3] (MGnifySampleWithMetadata attribute), [1], [2], [3] (MGnifyStudy attribute), [1], [2], [3] (MGnifyStudyDetail attribute), [1], [2], [3] ena_genome_accession (GenomeDetail attribute), [1], [2], [3] (GenomeList attribute), [1], [2], [3] (GenomeSchema attribute), [1], [2], [3] ena_sample_accession (GenomeDetail attribute), [1], [2], [3] (GenomeList attribute), [1], [2], [3] ena_study_accession (GenomeDetail attribute), [1], [2], [3] (GenomeList attribute), [1], [2], [3] ENASampleFields (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.ena_sample_fields) ENAStudyFields (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.ena_study_fields) encode() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] endpoint_module (Analyses property), [1], [2] (AnalysisDetail property), [1] (Assemblies property), [1], [2] (AssemblyDetail property), [1] (BiomeDetail property), [1] (Biomes property), [1], [2] (CatalogueDetail property), [1] (Catalogues property), [1], [2] (GenomeDetail property), [1] (Genomes property), [1], [2] (MGnifier property), [1], [2] (MGnifyDetail property) (MGnifyList property) (PrivateStudies property) (PublicationDetail property), [1] (Publications property), [1], [2] (QuerySet property) (RunDetail property), [1] (Runs property), [1], [2] (SampleDetail property), [1] (Samples property), [1], [2] (Studies property), [1], [2] (StudyDetail property), [1] endswith() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1]

enrich() (BioSampler method), [1] (MGnetizer method), [1] enrich_details() (Analyses method), [1], [2] (Assemblies method), [1], [2] (Biomes method), [1], [2] (Catalogues method), [1], [2] (Genomes method), [1], [2] (MGnifyList method) (PrivateStudies method) (Publications method), [1], [2] (Runs method), [1], [2] (Samples method), [1], [2] (Studies method), [1], [2] ENVIRONMENT_BIOME (ENASampleFields attribute), [1] ENVIRONMENT_FEATURE (ENASampleFields attribute), [1] ENVIRONMENT_MATERIAL (ENASampleFields attribute), [1] ENVIRONMENTAL_MEDIUM (ENASampleFields attribute), [1] ENVIRONMENTAL_SAMPLE (ENASampleFields attribute), [1] EUKARYOTES (GenomeCatalogueBaseCatalogueType attribute), [1] (GenomeCatalogueDetailCatalogueType attribute), [1] (GenomeCatalogueListCatalogueType attribute), [1] EuropePmcAnnotation (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.europe_pmc_annotation) EuropePmcAnnotationGroup (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.europe_pmc_annotation_group) EuropePmcAnnotationMention (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.europe_pmc_annotation_mention) EuropePmcAnnotationTag (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.europe_pmc_annotation_tag) exact (EuropePmcAnnotationMention attribute), [1], [2], [3] expandtabs() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] experiment_type (AnalysedRun attribute), [1], [2], [3] (AnalysedRunDetail attribute), [1], [2], [3] (MGnifyAnalysis attribute), [1], [2], [3] (MGnifyAnalysisDetail attribute), [1], [2], [3] (MGnifyAnalysisWithAnnotations attribute), [1], [2], [3] EXPERIMENTAL_FACTOR (ENASampleFields attribute), [1] ExperimentTypes (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.experiment_types) explain() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnetizer method), [1] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1]

F

FAI (DownloadFileIndexFileIndexType attribute), [1] (MGnifyDownloadFileIndexFileIndexType attribute), [1] FASTA (DownloadFileType attribute), [1] File (class in mgnipy.emgapi_v2_client.types) file_name (File attribute) file_size_bytes (MGnifyAnalysisDownloadFile attribute), [1], [2], [3] (MGnifyGenomeCatalogueDownloadFile attribute), [1] (MGnifyGenomeDownloadFile attribute), [1], [2], [3] (MGnifyStudyDownloadFile attribute), [1], [2], [3] file_type (MGnifyAnalysisDownloadFile attribute), [1], [2], [3] (MGnifyGenomeCatalogueDownloadFile attribute), [1] (MGnifyGenomeDownloadFile attribute), [1], [2], [3] (MGnifyStudyDownloadFile attribute), [1], [2], [3] filter() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (QuerySet method), [1] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] find() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] first() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] first_accession (MGnifyStudyDetail attribute), [1], [2], [3] FIRST_PUBLIC (ENASampleFields attribute), [1] (ENAStudyFields attribute), [1] flagship_studies (SuperStudyDetail attribute), [1], [2], [3] format() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] format_map() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1]

from_dict() (AdditionalContainedGenomeSchema class method), [1] (AnalysedRun class method), [1] (AnalysedRunDetail class method), [1] (AnnotatedResult class method), [1] (Assembly class method), [1] (AssemblyDetail class method), [1] (AssemblyDetailMetadataType0 class method), [1] (AssemblyDetailStatusType0 class method), [1] (Biome class method), [1] (BiomeListFilters class method), [1] (CobsMatch class method), [1] (DownloadFileIndexFile class method), [1] (EuropePmcAnnotation class method), [1] (EuropePmcAnnotationGroup class method), [1] (EuropePmcAnnotationMention class method), [1] (EuropePmcAnnotationTag class method), [1] (GenomeAssemblyLinkSchema class method), [1] (GenomeCatalogueBase class method), [1] (GenomeCatalogueBaseOtherStatsType0 class method), [1] (GenomeCatalogueDetail class method), [1] (GenomeCatalogueDetailOtherStatsType0 class method), [1] (GenomeCatalogueList class method), [1] (GenomeCatalogueListOtherStatsType0 class method), [1] (GenomeDetail class method), [1] (GenomeFilters class method), [1] (GenomeFragmentSearchOut class method), [1] (GenomeList class method), [1] (GenomeSchema class method), [1] (GenomeSearchData class method), [1] (GenomeWithAnnotations class method), [1] (GenomeWithAnnotationsAnnotations class method), [1] (Input class method), [1] (MGnifyAnalysis class method), [1] (MGnifyAnalysisDetail class method), [1] (MGnifyAnalysisDetailMetadataType0 class method), [1] (MGnifyAnalysisDetailQualityControlSummaryType0 class method), [1] (MGnifyAnalysisDownloadFile class method), [1] (MGnifyAnalysisTypedAnnotation class method), [1] (MGnifyAnalysisWithAnnotations class method), [1] (MGnifyAnalysisWithAnnotationsAnnotations class method), [1] (MGnifyAnalysisWithAnnotationsAnnotationsAdditionalPropertyType1 class method), [1] (MGnifyAnalysisWithAnnotationsMetadataType0 class method), [1] (MGnifyAnalysisWithAnnotationsQualityControlSummaryType0 class method), [1] (MGnifyDownloadFileIndexFile class method), [1] (MGnifyGenomeCatalogueDownloadFile class method), [1] (MGnifyGenomeDownloadFile class method), [1] (MGnifyPublication class method), [1] (MGnifyPublicationDetail class method), [1] (MGnifyPublicationDetailMetadata class method), [1] (MGnifyPublicationMetadata class method), [1] (MGnifySample class method), [1] (MGnifySampleDetail class method), [1] (MGnifySampleDetailMetadata class method), [1] (MGnifySampleWithMetadata class method), [1] (MGnifySampleWithMetadataMetadata class method), [1] (MGnifyStudy class method), [1] (MGnifyStudyAccessionLookup class method), [1] (MGnifyStudyDetail class method), [1] (MGnifyStudyDetailMetadata class method), [1] (MGnifyStudyDownloadFile class method), [1] (MGnifyStudyMetadata class method), [1] (NinjaPaginationResponseSchemaAdditionalContainedGenomeSchema class method), [1] (NinjaPaginationResponseSchemaAnalysedRun class method), [1] (NinjaPaginationResponseSchemaAssembly class method), [1] (NinjaPaginationResponseSchemaAssemblyDetail class method), [1] (NinjaPaginationResponseSchemaBiome class method), [1] (NinjaPaginationResponseSchemaGenomeAssemblyLinkSchema class method), [1] (NinjaPaginationResponseSchemaGenomeCatalogueList class method), [1] (NinjaPaginationResponseSchemaGenomeList class method), [1] (NinjaPaginationResponseSchemaMGnifyAnalysis class method), [1] (NinjaPaginationResponseSchemaMGnifyAnalysisDetail class method), [1] (NinjaPaginationResponseSchemaMGnifyAnalysisTypedAnnotation class method), [1] (NinjaPaginationResponseSchemaMGnifyPublication class method), [1] (NinjaPaginationResponseSchemaMGnifySample class method), [1] (NinjaPaginationResponseSchemaMGnifySampleWithMetadata class method), [1] (NinjaPaginationResponseSchemaMGnifyStudy class method), [1] (NinjaPaginationResponseSchemaSuperStudy class method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotal class method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAt class method), [1] (OrderByFilterLiteralpublishedYearPublishedYear class method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAt class method), [1] (PublicationAnnotations class method), [1] (PublicationListFilters class method), [1] (RunListFilters class method), [1] (SampleListFilters class method), [1] (Schema class method), [1] (StudyListFilters class method), [1] (SuperStudy class method), [1] (SuperStudyDetail class method), [1] (TokenVerifyInputSchema class method), [1] (WebinTokenRefreshRequest class method), [1] (WebinTokenRequest class method), [1] (WebinTokenResponse class method), [1] from_orm() (MGnipyConfig class method) ftp_url (GenomeCatalogueBase attribute), [1], [2], [3] (GenomeCatalogueDetail attribute), [1], [2], [3] (GenomeCatalogueList attribute), [1], [2], [3] FUNCTIONAL_ANALYSIS (DownloadType attribute), [1]

G

gc_content (GenomeDetail attribute), [1], [2], [3] (GenomeList attribute), [1], [2], [3] genome (AdditionalContainedGenomeSchema attribute), [1], [2], [3] (CobsMatch attribute), [1], [2], [3] (GenomeAssemblyLinkSchema attribute), [1], [2], [3] GENOME_ANALYSIS (DownloadType attribute), [1] genome_catalogues (SuperStudyDetail attribute), [1], [2], [3] genome_count (GenomeCatalogueBase attribute), [1], [2], [3] (GenomeCatalogueDetail attribute), [1], [2], [3] (GenomeCatalogueList attribute), [1], [2], [3] GenomeAssemblyLinkSchema (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.genome_assembly_link_schema) GenomeCatalogueBase (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.genome_catalogue_base) GenomeCatalogueBaseCatalogueType (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.genome_catalogue_base_catalogue_type) GenomeCatalogueBaseOtherStatsType0 (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.genome_catalogue_base_other_stats_type_0) GenomeCatalogueBaseStatus (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.genome_catalogue_base_status) GenomeCatalogueDetail (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.genome_catalogue_detail) GenomeCatalogueDetailCatalogueType (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.genome_catalogue_detail_catalogue_type) GenomeCatalogueDetailOtherStatsType0 (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.genome_catalogue_detail_other_stats_type_0) GenomeCatalogueDetailStatus (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.genome_catalogue_detail_status) GenomeCatalogueList (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.genome_catalogue_list) GenomeCatalogueListCatalogueType (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.genome_catalogue_list_catalogue_type) GenomeCatalogueListOtherStatsType0 (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.genome_catalogue_list_other_stats_type_0) GenomeCatalogueListStatus (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.genome_catalogue_list_status) GenomeDetail (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.genome_detail) (class in mgnipy.proxies) (class in mgnipy.V2.proxies.genomes) GenomeFilters (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.genome_filters) GenomeFragmentSearchOut (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.genome_fragment_search_out) GenomeList (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.genome_list) Genomes (class in mgnipy.proxies) (class in mgnipy.V2) (class in mgnipy.V2.proxies.genomes) GenomeSchema (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.genome_schema) GenomeSearchData (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.genome_search_data) GenomeType (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.genome_type) GenomeWithAnnotations (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.genome_with_annotations) GenomeWithAnnotationsAnnotations (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.genome_with_annotations_annotations) GEO_ACCESSION (ENAStudyFields attribute), [1] geographic_origin (GenomeDetail attribute), [1], [2], [3] (GenomeList attribute), [1], [2], [3] geographic_range (GenomeDetail attribute), [1], [2], [3] (GenomeList attribute), [1], [2], [3] GERMLINE (ENASampleFields attribute), [1] get() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1]

get_all() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] get_async_httpx_client() (AuthenticatedClient method), [1], [2] (Client method), [1], [2] get_detail() (Analyses method), [1], [2] (Assemblies method), [1], [2] (Biomes method), [1], [2] (Catalogues method), [1], [2] (Genomes method), [1], [2] (MGnifyList method) (PrivateStudies method) (Publications method), [1], [2] (Runs method), [1], [2] (Samples method), [1], [2] (Studies method), [1], [2] get_httpx_client() (AuthenticatedClient method), [1], [2] (Client method), [1], [2] get_ids() (MGnifyMetadata method) (ResultsHandler method) get_list() (AnalysisDetail method), [1] (AssemblyDetail method), [1] (BiomeDetail method), [1] (CatalogueDetail method), [1] (GenomeDetail method), [1] (MGnifyDetail method) (PublicationDetail method), [1] (RunDetail method), [1] (SampleDetail method), [1] (StudyDetail method), [1] get_num_items() (DescribeEmgapiModule method) get_num_pages() (DescribeEmgapiModule method) GetGenomeCatalogueGenomesOrderType0 (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.get_genome_catalogue_genomes_order_type_0) GFF (DownloadFileType attribute), [1] GZI (DownloadFileIndexFileIndexType attribute), [1] (MGnifyDownloadFileIndexFileIndexType attribute), [1]

H

has_analyses_from_pipeline (StudyListFilters attribute), [1], [2], [3] has_experiment_type (RunListFilters attribute), [1], [2], [3] headers (Response attribute) HOST (ENASampleFields attribute), [1] HOST_BODY_SITE (ENASampleFields attribute), [1] HOST_GENOTYPE (ENASampleFields attribute), [1] HOST_GRAVIDITY (ENASampleFields attribute), [1] HOST_GROWTH_CONDITIONS (ENASampleFields attribute), [1] HOST_PHENOTYPE (ENASampleFields attribute), [1] HOST_SCIENTIFIC_NAME (ENASampleFields attribute), [1] HOST_SEX (ENASampleFields attribute), [1] HOST_STATUS (ENASampleFields attribute), [1] HOST_TAX_ID (ENASampleFields attribute), [1] HTML (DownloadFileType attribute), [1] httpx_client (Analyses property), [1], [2] (AnalysisDetail property), [1] (Assemblies property), [1], [2] (AssemblyDetail property), [1] (BiomeDetail property), [1] (Biomes property), [1], [2] (BioSampler property), [1] (CatalogueDetail property), [1] (Catalogues property), [1], [2] (ClientManagerMixin property) (DWCTaxaMGazine property) (GenomeDetail property), [1] (Genomes property), [1], [2] (MGazine property), [1] (MGnetizer property), [1] (MGnifier property), [1], [2] (MGnifyDetail property) (MGnifyList property) (MGnipy property), [1] (PrivateStudies property) (PublicationDetail property), [1] (Publications property), [1], [2] (RunDetail property), [1] (Runs property), [1], [2] (SampleDetail property), [1] (Samples property), [1], [2] (Studies property), [1], [2] (StudyDetail property), [1] (TaxaMGazine property)

HYASS (ExperimentTypes attribute), [1]

I

id (EuropePmcAnnotationMention attribute), [1], [2], [3] id_param_key (DescribeEmgapiModule property) IDENTIFIED_BY (ENASampleFields attribute), [1] identifier (AnalysisDetail property), [1] (AssemblyDetail property), [1] (BiomeDetail property), [1] (CatalogueDetail property), [1] (GenomeDetail property), [1] (MGnifyDetail property) (PublicationDetail property), [1] (RunDetail property), [1] (SampleDetail property), [1] (StudyDetail property), [1] ids (MGnifyMetadata property) img_genome_accession (GenomeDetail attribute), [1], [2], [3] (GenomeList attribute), [1], [2], [3] index() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] index_file (MGnifyAnalysisDownloadFile attribute), [1], [2], [3] (MGnifyGenomeCatalogueDownloadFile attribute), [1] (MGnifyGenomeDownloadFile attribute), [1], [2], [3] (MGnifyStudyDownloadFile attribute), [1], [2], [3] index_files (MGnifyAnalysisDownloadFile attribute), [1], [2], [3] (MGnifyStudyDownloadFile attribute), [1], [2], [3] index_type (DownloadFileIndexFile attribute), [1], [2], [3] (MGnifyDownloadFileIndexFile attribute), [1], [2], [3] Input (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.input_) instrument_model (AnalysedRun attribute), [1], [2], [3] (AnalysedRunDetail attribute), [1], [2], [3] instrument_platform (AnalysedRun attribute), [1], [2], [3] (AnalysedRunDetail attribute), [1], [2], [3] INVESTIGATION_TYPE (ENASampleFields attribute), [1] ipr_coverage (GenomeDetail attribute), [1], [2], [3] is_list_endpoint (DescribeEmgapiModule property) is_private (DescribeEmgapiModule property) isalnum() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] isalpha() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] isascii() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] isdecimal() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] isdigit() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] isidentifier() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1]

islower() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] isnumeric() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] ISOLATE (ENASampleFields attribute), [1] (ENAStudyFields attribute), [1] (GenomeType attribute), [1] ISOLATION_SOURCE (ENASampleFields attribute), [1] isprintable() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] isspace() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] istitle() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] isupper() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] items (NinjaPaginationResponseSchemaAdditionalContainedGenomeSchema attribute), [1], [2], [3] (NinjaPaginationResponseSchemaAnalysedRun attribute), [1], [2], [3] (NinjaPaginationResponseSchemaAssembly attribute), [1], [2], [3] (NinjaPaginationResponseSchemaAssemblyDetail attribute), [1], [2], [3] (NinjaPaginationResponseSchemaBiome attribute), [1], [2], [3] (NinjaPaginationResponseSchemaGenomeAssemblyLinkSchema attribute), [1], [2], [3] (NinjaPaginationResponseSchemaGenomeCatalogueList attribute), [1], [2], [3] (NinjaPaginationResponseSchemaGenomeList attribute), [1], [2], [3] (NinjaPaginationResponseSchemaMGnifyAnalysis attribute), [1], [2], [3] (NinjaPaginationResponseSchemaMGnifyAnalysisDetail attribute), [1], [2], [3] (NinjaPaginationResponseSchemaMGnifyAnalysisTypedAnnotation attribute), [1], [2], [3] (NinjaPaginationResponseSchemaMGnifyPublication attribute), [1], [2], [3] (NinjaPaginationResponseSchemaMGnifySample attribute), [1], [2], [3] (NinjaPaginationResponseSchemaMGnifySampleWithMetadata attribute), [1], [2], [3] (NinjaPaginationResponseSchemaMGnifyStudy attribute), [1], [2], [3] (NinjaPaginationResponseSchemaSuperStudy attribute), [1], [2], [3] iter_details (Analyses property), [1], [2] (Assemblies property), [1], [2] (Biomes property), [1], [2] (Catalogues property), [1], [2] (Genomes property), [1], [2] (MGnifyList property) (PrivateStudies property) (Publications property), [1], [2] (Runs property), [1], [2] (Samples property), [1], [2] (Studies property), [1], [2]

J

join() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1]

JSON (DownloadFileType attribute), [1] json() (MGnipyConfig method)

K

KEYWORDS (ENASampleFields attribute), [1] (ENAStudyFields attribute), [1]

L

LAST_UPDATED (ENASampleFields attribute), [1] (ENAStudyFields attribute), [1] LAT (ENASampleFields attribute), [1] lazy_concat() (DWCTaxaMGazine method) (MGazine method), [1] (TaxaMGazine method) lazy_merged (DWCTaxaMGazine property) (MGazine attribute), [1] (MGazine property), [1] (TaxaMGazine property) length (GenomeDetail attribute), [1], [2], [3] (GenomeList attribute), [1], [2], [3] LENGTH (GetGenomeCatalogueGenomesOrderType0 attribute), [1] (ListMgnifyGenomesOrderType0 attribute), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 attribute), [1] lineage (Biome attribute), [1], [2], [3] lineages (BiomeDetail property), [1] (Biomes property), [1], [2] (BiomesTreeMixin property) list_pipeline_version() (DWCTaxaMGazine method) (MGazine method), [1] (TaxaMGazine method) list_relationships() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] list_resources() (MGnipy method), [1] list_short_descriptions() (DWCTaxaMGazine method) (MGazine method), [1] (TaxaMGazine method) list_supported_params() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (DescribeEmgapiModule method) (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] list_urls() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (QuerySet method), [1] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] ListMgnifyGenomesOrderType0 (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.list_mgnify_genomes_order_type_0) ListMgnifyPublicationsOrderType0 (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.list_mgnify_publications_order_type_0) ListMgnifySamplesOrderType0 (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.list_mgnify_samples_order_type_0) ListMgnifyStudiesOrderType0 (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.list_mgnify_studies_order_type_0) ljust() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] load() (DWCTaxaMGazine method) (TaxaMGazine method) load_cache() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (BioSampler method), [1] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (CheckpointMixin method) (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnetizer method), [1] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1]

load_cache_manifest() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (BioSampler method), [1] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (CheckpointMixin method) (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnetizer method), [1] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] load_cache_results() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (BioSampler method), [1] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (CheckpointMixin method) (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnetizer method), [1] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] LOCAL_ENVIRONMENTAL_CONTEXT (ENASampleFields attribute), [1] LOCATION (ENASampleFields attribute), [1] LOCATION_END (ENASampleFields attribute), [1] LOCATION_START (ENASampleFields attribute), [1] logo_url (SuperStudy attribute), [1], [2], [3] (SuperStudyDetail attribute), [1], [2], [3] LON (ENASampleFields attribute), [1] long_description (MGnifyAnalysisDownloadFile attribute), [1], [2], [3] (MGnifyGenomeCatalogueDownloadFile attribute), [1] (MGnifyGenomeDownloadFile attribute), [1], [2], [3] (MGnifyStudyDownloadFile attribute), [1], [2], [3] long_short_mapper() (in module mgnipy.V2.datasets.taxonomic) long_short_mapping (DWCTaxaMGazine property) (TaxaMGazine property) lower() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] LRASS (ExperimentTypes attribute), [1] lstrip() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1]

M

MAG (GenomeType attribute), [1] mag_accession (GenomeAssemblyLinkSchema attribute), [1], [2], [3] main() (in module mgnipy.cli) maketrans() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType static method), [1] (DownloadFileIndexFileIndexType static method), [1] (DownloadFileType static method), [1] (DownloadType static method), [1] (ENASampleFields static method), [1] (ENAStudyFields static method), [1] (ExperimentTypes static method), [1] (GenomeCatalogueBaseCatalogueType static method), [1] (GenomeCatalogueBaseStatus static method), [1] (GenomeCatalogueDetailCatalogueType static method), [1] (GenomeCatalogueDetailStatus static method), [1] (GenomeCatalogueListCatalogueType static method), [1] (GenomeCatalogueListStatus static method), [1] (GenomeType static method), [1] (GetGenomeCatalogueGenomesOrderType0 static method), [1] (ListMgnifyGenomesOrderType0 static method), [1] (ListMgnifyPublicationsOrderType0 static method), [1] (ListMgnifySamplesOrderType0 static method), [1] (ListMgnifyStudiesOrderType0 static method), [1] (MGnifyDownloadFileIndexFileIndexType static method), [1] (MGnifyFunctionalAnalysisAnnotationType static method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 static method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 static method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 static method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 static method), [1] (PipelineVersions static method), [1] manifest_path (Analyses property), [1], [2] (AnalysisDetail property), [1] (Assemblies property), [1], [2] (AssemblyDetail property), [1] (BiomeDetail property), [1] (Biomes property), [1], [2] (BioSampler property), [1] (CatalogueDetail property), [1] (Catalogues property), [1], [2] (CheckpointMixin property) (GenomeDetail property), [1] (Genomes property), [1], [2] (MGnetizer property), [1] (MGnifier property), [1], [2] (MGnifyDetail property) (MGnifyList property) (PrivateStudies property) (PublicationDetail property), [1] (Publications property), [1], [2] (RunDetail property), [1] (Runs property), [1], [2] (SampleDetail property), [1] (Samples property), [1], [2] (Studies property), [1], [2] (StudyDetail property), [1] MARINE_REGION (ENASampleFields attribute), [1] MATING_TYPE (ENASampleFields attribute), [1] max_depth (BiomeListFilters attribute), [1], [2], [3] mentions (EuropePmcAnnotation attribute), [1], [2], [3] METAB (ExperimentTypes attribute), [1] metadata (Analyses property), [1], [2] (Assemblies property), [1], [2] (AssemblyDetail attribute), [1], [2], [3] (Biomes property), [1], [2] (BioSampler attribute), [1] (BioSampler property), [1] (Catalogues property), [1], [2] (Genomes property), [1], [2] (MGnetizer attribute), [1] (MGnetizer property), [1] (MGnifyAnalysisDetail attribute), [1], [2], [3] (MGnifyAnalysisWithAnnotations attribute), [1], [2], [3] (MGnifyList property) (MGnifyPublication attribute), [1], [2], [3] (MGnifyPublicationDetail attribute), [1], [2], [3] (MGnifySampleDetail attribute), [1], [2], [3] (MGnifySampleWithMetadata attribute), [1], [2], [3] (MGnifyStudy attribute), [1], [2], [3] (MGnifyStudyDetail attribute), [1], [2], [3] (PrivateStudies property) (Publications property), [1], [2] (Runs property), [1], [2] (Samples property), [1], [2] (Studies property), [1], [2] MetadataSettersMixin (class in mgnipy.V2.datasets.annotate) METAG (ExperimentTypes attribute), [1] METAT (ExperimentTypes attribute), [1] mg_password (MGnipyConfig attribute) mg_user (MGnipyConfig attribute) MGazine (class in mgnipy) (class in mgnipy.V2.datasets) MGnetizer (class in mgnipy) (class in mgnipy.V2.collect.mgnetizer) MGnifier (class in mgnipy) (class in mgnipy.V2) (class in mgnipy.V2.mgnifier) mgnify (AnnotatedResult attribute), [1], [2], [3] mgnify_analyses (DWCTaxaMGazine property) (MetadataSettersMixin property) (MGazine property), [1] (MTG property), [1] (TaxaMGazine property) mgnify_assemblies (DWCTaxaMGazine property) (MetadataSettersMixin property) (MGazine property), [1] (MTG property), [1] (TaxaMGazine property) mgnify_details (Analyses property), [1], [2] (Assemblies property), [1], [2] (Biomes property), [1], [2] (Catalogues property), [1], [2] (Genomes property), [1], [2] (MGnifyList property) (PrivateStudies property) (Publications property), [1], [2] (Runs property), [1], [2] (Samples property), [1], [2] (Studies property), [1], [2] mgnify_metadata (MGnetizer attribute), [1] (MGnetizer property), [1] mgnify_runs (DWCTaxaMGazine property) (MetadataSettersMixin property) (MGazine property), [1] (MTG property), [1] (TaxaMGazine property) mgnify_samples (DWCTaxaMGazine property) (MetadataSettersMixin property) (MGazine property), [1] (MTG property), [1] (TaxaMGazine property) mgnify_studies (DWCTaxaMGazine property) (MetadataSettersMixin property) (MGazine property), [1] (MTG property), [1] (TaxaMGazine property) MGnifyAnalysis (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_analysis) MGnifyAnalysisDetail (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_analysis_detail) MGnifyAnalysisDetailMetadataType0 (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_analysis_detail_metadata_type_0) MGnifyAnalysisDetailQualityControlSummaryType0 (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_analysis_detail_quality_control_summary_type_0) MGnifyAnalysisDownloadFile (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_analysis_download_file) MGnifyAnalysisTypedAnnotation (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_analysis_typed_annotation) MGnifyAnalysisWithAnnotations (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_analysis_with_annotations) MGnifyAnalysisWithAnnotationsAnnotations (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_analysis_with_annotations_annotations) MGnifyAnalysisWithAnnotationsAnnotationsAdditionalPropertyType1 (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_analysis_with_annotations_annotations_additional_property_type_1) MGnifyAnalysisWithAnnotationsMetadataType0 (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_analysis_with_annotations_metadata_type_0) MGnifyAnalysisWithAnnotationsQualityControlSummaryType0 (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_analysis_with_annotations_quality_control_summary_type_0) MGnifyDetail (class in mgnipy.V2.proxies) MGnifyDownloadFileIndexFile (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_download_file_index_file) MGnifyDownloadFileIndexFileIndexType (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_download_file_index_file_index_type) MGnifyFunctionalAnalysisAnnotationType (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_functional_analysis_annotation_type) MGnifyGenomeCatalogueDownloadFile (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_genome_catalogue_download_file) MGnifyGenomeDownloadFile (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_genome_download_file) MGnifyList (class in mgnipy.V2.proxies) MGnifyMetadata (class in mgnipy.V2.mgnifier.metadata) MGnifyPublication (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_publication) MGnifyPublicationDetail (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_publication_detail) MGnifyPublicationDetailMetadata (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_publication_detail_metadata) MGnifyPublicationMetadata (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_publication_metadata) MGnifySample (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_sample) MGnifySampleDetail (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_sample_detail) MGnifySampleDetailMetadata (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_sample_detail_metadata) MGnifySampleWithMetadata (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_sample_with_metadata) MGnifySampleWithMetadataMetadata (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_sample_with_metadata_metadata) MGnifyStudy (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_study) MGnifyStudyAccessionLookup (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_study_accession_lookup) MGnifyStudyDetail (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_study_detail) MGnifyStudyDetailMetadata (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_study_detail_metadata) MGnifyStudyDownloadFile (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_study_download_file) MGnifyStudyMetadata (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.m_gnify_study_metadata) mgnipy module MGnipy (class in mgnipy) (class in mgnipy.mgnipy) mgnipy.cli module mgnipy.emgapi_v2_client module mgnipy.emgapi_v2_client.api module mgnipy.emgapi_v2_client.api.analyses module mgnipy.emgapi_v2_client.api.analyses.analysis_get_mgnify_analysis_with_annotations module mgnipy.emgapi_v2_client.api.analyses.analysis_get_mgnify_analysis_with_annotations_of_type module mgnipy.emgapi_v2_client.api.analyses.get_mgnify_analysis module mgnipy.emgapi_v2_client.api.analyses.list_mgnify_analyses module mgnipy.emgapi_v2_client.api.assemblies module mgnipy.emgapi_v2_client.api.assemblies.get_assembly module mgnipy.emgapi_v2_client.api.assemblies.list_additional_contained_genomes_for_assembly module mgnipy.emgapi_v2_client.api.assemblies.list_analyses_for_assembly module mgnipy.emgapi_v2_client.api.assemblies.list_assemblies module mgnipy.emgapi_v2_client.api.assemblies.list_genome_links_for_assembly module mgnipy.emgapi_v2_client.api.authentication module mgnipy.emgapi_v2_client.api.authentication.token_obtain_sliding module mgnipy.emgapi_v2_client.api.authentication.token_refresh_sliding module mgnipy.emgapi_v2_client.api.authentication.token_verify module mgnipy.emgapi_v2_client.api.genomes module mgnipy.emgapi_v2_client.api.genomes.genome_fragment_search module mgnipy.emgapi_v2_client.api.genomes.get_genome_annotations module mgnipy.emgapi_v2_client.api.genomes.get_genome_catalogue module mgnipy.emgapi_v2_client.api.genomes.get_genome_catalogue_genomes module mgnipy.emgapi_v2_client.api.genomes.get_mgnify_genome module mgnipy.emgapi_v2_client.api.genomes.list_genome_catalogues module mgnipy.emgapi_v2_client.api.genomes.list_mgnify_genomes module mgnipy.emgapi_v2_client.api.miscellaneous module mgnipy.emgapi_v2_client.api.miscellaneous.list_mgnify_biomes module mgnipy.emgapi_v2_client.api.private_data module mgnipy.emgapi_v2_client.api.private_data.list_private_mgnify_studies module mgnipy.emgapi_v2_client.api.publications module mgnipy.emgapi_v2_client.api.publications.get_mgnify_publication module mgnipy.emgapi_v2_client.api.publications.get_mgnify_publication_annotations module mgnipy.emgapi_v2_client.api.publications.list_mgnify_publications module mgnipy.emgapi_v2_client.api.runs module mgnipy.emgapi_v2_client.api.runs.get_analysed_run module mgnipy.emgapi_v2_client.api.runs.list_analysed_runs module mgnipy.emgapi_v2_client.api.runs.list_runs_analyses module mgnipy.emgapi_v2_client.api.runs.list_runs_assemblies module mgnipy.emgapi_v2_client.api.samples module mgnipy.emgapi_v2_client.api.samples.get_mgnify_sample module mgnipy.emgapi_v2_client.api.samples.list_mgnify_samples module mgnipy.emgapi_v2_client.api.samples.list_sample_assemblies module mgnipy.emgapi_v2_client.api.samples.list_sample_runs module mgnipy.emgapi_v2_client.api.studies module mgnipy.emgapi_v2_client.api.studies.get_mgnify_study module mgnipy.emgapi_v2_client.api.studies.get_mgnify_study_accession_by_insdc_accession module mgnipy.emgapi_v2_client.api.studies.get_super_study module mgnipy.emgapi_v2_client.api.studies.list_mgnify_studies module mgnipy.emgapi_v2_client.api.studies.list_mgnify_study_analyses module mgnipy.emgapi_v2_client.api.studies.list_mgnify_study_publications module mgnipy.emgapi_v2_client.api.studies.list_mgnify_study_samples module mgnipy.emgapi_v2_client.api.studies.list_super_studies module mgnipy.emgapi_v2_client.client module mgnipy.emgapi_v2_client.errors module mgnipy.emgapi_v2_client.models module mgnipy.emgapi_v2_client.models.additional_contained_genome_schema module mgnipy.emgapi_v2_client.models.analysed_run module mgnipy.emgapi_v2_client.models.analysed_run_detail module mgnipy.emgapi_v2_client.models.analysis_get_mgnify_analysis_with_annotations_of_type_m_gnify_functional_analysis_annotation_type module mgnipy.emgapi_v2_client.models.annotated_result module mgnipy.emgapi_v2_client.models.assembly module mgnipy.emgapi_v2_client.models.assembly_detail module mgnipy.emgapi_v2_client.models.assembly_detail_metadata_type_0 module mgnipy.emgapi_v2_client.models.assembly_detail_status_type_0 module mgnipy.emgapi_v2_client.models.biome module mgnipy.emgapi_v2_client.models.biome_list_filters module mgnipy.emgapi_v2_client.models.cobs_match module mgnipy.emgapi_v2_client.models.download_file_index_file module mgnipy.emgapi_v2_client.models.download_file_index_file_index_type module mgnipy.emgapi_v2_client.models.download_file_type module mgnipy.emgapi_v2_client.models.download_type module mgnipy.emgapi_v2_client.models.ena_sample_fields module mgnipy.emgapi_v2_client.models.ena_study_fields module mgnipy.emgapi_v2_client.models.europe_pmc_annotation module mgnipy.emgapi_v2_client.models.europe_pmc_annotation_group module mgnipy.emgapi_v2_client.models.europe_pmc_annotation_mention module mgnipy.emgapi_v2_client.models.europe_pmc_annotation_tag module mgnipy.emgapi_v2_client.models.experiment_types module mgnipy.emgapi_v2_client.models.genome_assembly_link_schema module mgnipy.emgapi_v2_client.models.genome_catalogue_base module mgnipy.emgapi_v2_client.models.genome_catalogue_base_catalogue_type module mgnipy.emgapi_v2_client.models.genome_catalogue_base_other_stats_type_0 module mgnipy.emgapi_v2_client.models.genome_catalogue_base_status module mgnipy.emgapi_v2_client.models.genome_catalogue_detail module mgnipy.emgapi_v2_client.models.genome_catalogue_detail_catalogue_type module mgnipy.emgapi_v2_client.models.genome_catalogue_detail_other_stats_type_0 module mgnipy.emgapi_v2_client.models.genome_catalogue_detail_status module mgnipy.emgapi_v2_client.models.genome_catalogue_list module mgnipy.emgapi_v2_client.models.genome_catalogue_list_catalogue_type module mgnipy.emgapi_v2_client.models.genome_catalogue_list_other_stats_type_0 module mgnipy.emgapi_v2_client.models.genome_catalogue_list_status module mgnipy.emgapi_v2_client.models.genome_detail module mgnipy.emgapi_v2_client.models.genome_filters module mgnipy.emgapi_v2_client.models.genome_fragment_search_out module mgnipy.emgapi_v2_client.models.genome_list module mgnipy.emgapi_v2_client.models.genome_schema module mgnipy.emgapi_v2_client.models.genome_search_data module mgnipy.emgapi_v2_client.models.genome_type module mgnipy.emgapi_v2_client.models.genome_with_annotations module mgnipy.emgapi_v2_client.models.genome_with_annotations_annotations module mgnipy.emgapi_v2_client.models.get_genome_catalogue_genomes_order_type_0 module mgnipy.emgapi_v2_client.models.input_ module mgnipy.emgapi_v2_client.models.list_mgnify_genomes_order_type_0 module mgnipy.emgapi_v2_client.models.list_mgnify_publications_order_type_0 module mgnipy.emgapi_v2_client.models.list_mgnify_samples_order_type_0 module

mgnipy.emgapi_v2_client.models.list_mgnify_studies_order_type_0 module mgnipy.emgapi_v2_client.models.m_gnify_analysis module mgnipy.emgapi_v2_client.models.m_gnify_analysis_detail module mgnipy.emgapi_v2_client.models.m_gnify_analysis_detail_metadata_type_0 module mgnipy.emgapi_v2_client.models.m_gnify_analysis_detail_quality_control_summary_type_0 module mgnipy.emgapi_v2_client.models.m_gnify_analysis_download_file module mgnipy.emgapi_v2_client.models.m_gnify_analysis_typed_annotation module mgnipy.emgapi_v2_client.models.m_gnify_analysis_with_annotations module mgnipy.emgapi_v2_client.models.m_gnify_analysis_with_annotations_annotations module mgnipy.emgapi_v2_client.models.m_gnify_analysis_with_annotations_annotations_additional_property_type_1 module mgnipy.emgapi_v2_client.models.m_gnify_analysis_with_annotations_metadata_type_0 module mgnipy.emgapi_v2_client.models.m_gnify_analysis_with_annotations_quality_control_summary_type_0 module mgnipy.emgapi_v2_client.models.m_gnify_download_file_index_file module mgnipy.emgapi_v2_client.models.m_gnify_download_file_index_file_index_type module mgnipy.emgapi_v2_client.models.m_gnify_functional_analysis_annotation_type module mgnipy.emgapi_v2_client.models.m_gnify_genome_catalogue_download_file module mgnipy.emgapi_v2_client.models.m_gnify_genome_download_file module mgnipy.emgapi_v2_client.models.m_gnify_publication module mgnipy.emgapi_v2_client.models.m_gnify_publication_detail module mgnipy.emgapi_v2_client.models.m_gnify_publication_detail_metadata module mgnipy.emgapi_v2_client.models.m_gnify_publication_metadata module mgnipy.emgapi_v2_client.models.m_gnify_sample module mgnipy.emgapi_v2_client.models.m_gnify_sample_detail module mgnipy.emgapi_v2_client.models.m_gnify_sample_detail_metadata module mgnipy.emgapi_v2_client.models.m_gnify_sample_with_metadata module mgnipy.emgapi_v2_client.models.m_gnify_sample_with_metadata_metadata module mgnipy.emgapi_v2_client.models.m_gnify_study module mgnipy.emgapi_v2_client.models.m_gnify_study_accession_lookup module mgnipy.emgapi_v2_client.models.m_gnify_study_detail module mgnipy.emgapi_v2_client.models.m_gnify_study_detail_metadata module mgnipy.emgapi_v2_client.models.m_gnify_study_download_file module mgnipy.emgapi_v2_client.models.m_gnify_study_metadata module mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_additional_contained_genome_schema module mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_analysed_run module mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_assembly module mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_assembly_detail module mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_biome module mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_genome_assembly_link_schema module mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_genome_catalogue_list module mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_genome_list module mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_m_gnify_analysis module mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_m_gnify_analysis_detail module mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_m_gnify_analysis_typed_annotation module mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_m_gnify_publication module mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_m_gnify_sample module mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_m_gnify_sample_with_metadata module mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_m_gnify_study module mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_super_study module mgnipy.emgapi_v2_client.models.order_by_filter_literalaccession_accession_length_length_completeness_completeness_contamination_contamination_num_genomes_total_num_genomes_total module mgnipy.emgapi_v2_client.models.order_by_filter_literalaccession_accession_length_length_completeness_completeness_contamination_contamination_num_genomes_total_num_genomes_total_order_type_0 module mgnipy.emgapi_v2_client.models.order_by_filter_literalaccession_accession_updated_at_updated_at module mgnipy.emgapi_v2_client.models.order_by_filter_literalaccession_accession_updated_at_updated_at_order_type_0 module mgnipy.emgapi_v2_client.models.order_by_filter_literalpublished_year_published_year module mgnipy.emgapi_v2_client.models.order_by_filter_literalpublished_year_published_year_order_type_0 module mgnipy.emgapi_v2_client.models.order_by_filter_literalsample_title_sample_title_updated_at_updated_at module mgnipy.emgapi_v2_client.models.order_by_filter_literalsample_title_sample_title_updated_at_updated_at_order_type_0 module mgnipy.emgapi_v2_client.models.pipeline_versions module mgnipy.emgapi_v2_client.models.publication_annotations module mgnipy.emgapi_v2_client.models.publication_list_filters module mgnipy.emgapi_v2_client.models.run_list_filters module mgnipy.emgapi_v2_client.models.sample_list_filters module mgnipy.emgapi_v2_client.models.schema module mgnipy.emgapi_v2_client.models.study_list_filters module mgnipy.emgapi_v2_client.models.super_study module mgnipy.emgapi_v2_client.models.super_study_detail module mgnipy.emgapi_v2_client.models.token_verify_input_schema module mgnipy.emgapi_v2_client.models.webin_token_refresh_request module mgnipy.emgapi_v2_client.models.webin_token_request module mgnipy.emgapi_v2_client.models.webin_token_response module mgnipy.emgapi_v2_client.types module mgnipy.mgnipy module mgnipy.proxies module mgnipy.V2 module mgnipy.V2.collect module mgnipy.V2.collect.biosampler module mgnipy.V2.collect.mgnetizer module mgnipy.V2.datasets module mgnipy.V2.datasets.annotate module mgnipy.V2.datasets.taxonomic module mgnipy.V2.mgnifier module mgnipy.V2.mgnifier.describe module mgnipy.V2.mgnifier.endpoints module mgnipy.V2.mgnifier.metadata module mgnipy.V2.mgnifier.query_executor module mgnipy.V2.mgnifier.query_set module mgnipy.V2.mixins module mgnipy.V2.proxies module mgnipy.V2.proxies.analyses module mgnipy.V2.proxies.assemblies module mgnipy.V2.proxies.biomes module mgnipy.V2.proxies.catalogues module mgnipy.V2.proxies.genomes module mgnipy.V2.proxies.publications module mgnipy.V2.proxies.runs module mgnipy.V2.proxies.samples module mgnipy.V2.proxies.studies module MGnipyConfig (class in mgnipy) mime_type (File attribute) model_computed_fields (MGnipyConfig attribute) model_config (MGnipyConfig attribute) model_construct() (MGnipyConfig class method) model_copy() (MGnipyConfig method) model_dump() (MGnipyConfig method) model_dump_json() (MGnipyConfig method) model_extra (MGnipyConfig property) model_fields (MGnipyConfig attribute) model_fields_set (MGnipyConfig property) model_json_schema() (MGnipyConfig class method) model_parametrized_name() (MGnipyConfig class method) model_post_init() (MGnipyConfig method) model_rebuild() (MGnipyConfig class method) model_validate() (MGnipyConfig class method) model_validate_json() (MGnipyConfig class method) model_validate_strings() (MGnipyConfig class method) module mgnipy mgnipy.cli mgnipy.emgapi_v2_client mgnipy.emgapi_v2_client.api mgnipy.emgapi_v2_client.api.analyses mgnipy.emgapi_v2_client.api.analyses.analysis_get_mgnify_analysis_with_annotations mgnipy.emgapi_v2_client.api.analyses.analysis_get_mgnify_analysis_with_annotations_of_type mgnipy.emgapi_v2_client.api.analyses.get_mgnify_analysis mgnipy.emgapi_v2_client.api.analyses.list_mgnify_analyses mgnipy.emgapi_v2_client.api.assemblies mgnipy.emgapi_v2_client.api.assemblies.get_assembly mgnipy.emgapi_v2_client.api.assemblies.list_additional_contained_genomes_for_assembly mgnipy.emgapi_v2_client.api.assemblies.list_analyses_for_assembly mgnipy.emgapi_v2_client.api.assemblies.list_assemblies mgnipy.emgapi_v2_client.api.assemblies.list_genome_links_for_assembly mgnipy.emgapi_v2_client.api.authentication mgnipy.emgapi_v2_client.api.authentication.token_obtain_sliding mgnipy.emgapi_v2_client.api.authentication.token_refresh_sliding mgnipy.emgapi_v2_client.api.authentication.token_verify mgnipy.emgapi_v2_client.api.genomes mgnipy.emgapi_v2_client.api.genomes.genome_fragment_search mgnipy.emgapi_v2_client.api.genomes.get_genome_annotations mgnipy.emgapi_v2_client.api.genomes.get_genome_catalogue mgnipy.emgapi_v2_client.api.genomes.get_genome_catalogue_genomes mgnipy.emgapi_v2_client.api.genomes.get_mgnify_genome mgnipy.emgapi_v2_client.api.genomes.list_genome_catalogues mgnipy.emgapi_v2_client.api.genomes.list_mgnify_genomes mgnipy.emgapi_v2_client.api.miscellaneous mgnipy.emgapi_v2_client.api.miscellaneous.list_mgnify_biomes mgnipy.emgapi_v2_client.api.private_data mgnipy.emgapi_v2_client.api.private_data.list_private_mgnify_studies mgnipy.emgapi_v2_client.api.publications mgnipy.emgapi_v2_client.api.publications.get_mgnify_publication mgnipy.emgapi_v2_client.api.publications.get_mgnify_publication_annotations mgnipy.emgapi_v2_client.api.publications.list_mgnify_publications mgnipy.emgapi_v2_client.api.runs mgnipy.emgapi_v2_client.api.runs.get_analysed_run mgnipy.emgapi_v2_client.api.runs.list_analysed_runs mgnipy.emgapi_v2_client.api.runs.list_runs_analyses mgnipy.emgapi_v2_client.api.runs.list_runs_assemblies mgnipy.emgapi_v2_client.api.samples mgnipy.emgapi_v2_client.api.samples.get_mgnify_sample mgnipy.emgapi_v2_client.api.samples.list_mgnify_samples mgnipy.emgapi_v2_client.api.samples.list_sample_assemblies mgnipy.emgapi_v2_client.api.samples.list_sample_runs mgnipy.emgapi_v2_client.api.studies mgnipy.emgapi_v2_client.api.studies.get_mgnify_study mgnipy.emgapi_v2_client.api.studies.get_mgnify_study_accession_by_insdc_accession mgnipy.emgapi_v2_client.api.studies.get_super_study mgnipy.emgapi_v2_client.api.studies.list_mgnify_studies mgnipy.emgapi_v2_client.api.studies.list_mgnify_study_analyses mgnipy.emgapi_v2_client.api.studies.list_mgnify_study_publications mgnipy.emgapi_v2_client.api.studies.list_mgnify_study_samples mgnipy.emgapi_v2_client.api.studies.list_super_studies mgnipy.emgapi_v2_client.client mgnipy.emgapi_v2_client.errors mgnipy.emgapi_v2_client.models mgnipy.emgapi_v2_client.models.additional_contained_genome_schema mgnipy.emgapi_v2_client.models.analysed_run mgnipy.emgapi_v2_client.models.analysed_run_detail mgnipy.emgapi_v2_client.models.analysis_get_mgnify_analysis_with_annotations_of_type_m_gnify_functional_analysis_annotation_type mgnipy.emgapi_v2_client.models.annotated_result mgnipy.emgapi_v2_client.models.assembly mgnipy.emgapi_v2_client.models.assembly_detail mgnipy.emgapi_v2_client.models.assembly_detail_metadata_type_0 mgnipy.emgapi_v2_client.models.assembly_detail_status_type_0 mgnipy.emgapi_v2_client.models.biome mgnipy.emgapi_v2_client.models.biome_list_filters mgnipy.emgapi_v2_client.models.cobs_match mgnipy.emgapi_v2_client.models.download_file_index_file mgnipy.emgapi_v2_client.models.download_file_index_file_index_type mgnipy.emgapi_v2_client.models.download_file_type mgnipy.emgapi_v2_client.models.download_type mgnipy.emgapi_v2_client.models.ena_sample_fields mgnipy.emgapi_v2_client.models.ena_study_fields mgnipy.emgapi_v2_client.models.europe_pmc_annotation mgnipy.emgapi_v2_client.models.europe_pmc_annotation_group mgnipy.emgapi_v2_client.models.europe_pmc_annotation_mention mgnipy.emgapi_v2_client.models.europe_pmc_annotation_tag mgnipy.emgapi_v2_client.models.experiment_types mgnipy.emgapi_v2_client.models.genome_assembly_link_schema mgnipy.emgapi_v2_client.models.genome_catalogue_base mgnipy.emgapi_v2_client.models.genome_catalogue_base_catalogue_type mgnipy.emgapi_v2_client.models.genome_catalogue_base_other_stats_type_0 mgnipy.emgapi_v2_client.models.genome_catalogue_base_status mgnipy.emgapi_v2_client.models.genome_catalogue_detail mgnipy.emgapi_v2_client.models.genome_catalogue_detail_catalogue_type mgnipy.emgapi_v2_client.models.genome_catalogue_detail_other_stats_type_0 mgnipy.emgapi_v2_client.models.genome_catalogue_detail_status mgnipy.emgapi_v2_client.models.genome_catalogue_list mgnipy.emgapi_v2_client.models.genome_catalogue_list_catalogue_type mgnipy.emgapi_v2_client.models.genome_catalogue_list_other_stats_type_0 mgnipy.emgapi_v2_client.models.genome_catalogue_list_status mgnipy.emgapi_v2_client.models.genome_detail mgnipy.emgapi_v2_client.models.genome_filters mgnipy.emgapi_v2_client.models.genome_fragment_search_out mgnipy.emgapi_v2_client.models.genome_list mgnipy.emgapi_v2_client.models.genome_schema mgnipy.emgapi_v2_client.models.genome_search_data mgnipy.emgapi_v2_client.models.genome_type mgnipy.emgapi_v2_client.models.genome_with_annotations mgnipy.emgapi_v2_client.models.genome_with_annotations_annotations mgnipy.emgapi_v2_client.models.get_genome_catalogue_genomes_order_type_0 mgnipy.emgapi_v2_client.models.input_ mgnipy.emgapi_v2_client.models.list_mgnify_genomes_order_type_0 mgnipy.emgapi_v2_client.models.list_mgnify_publications_order_type_0 mgnipy.emgapi_v2_client.models.list_mgnify_samples_order_type_0 mgnipy.emgapi_v2_client.models.list_mgnify_studies_order_type_0 mgnipy.emgapi_v2_client.models.m_gnify_analysis mgnipy.emgapi_v2_client.models.m_gnify_analysis_detail mgnipy.emgapi_v2_client.models.m_gnify_analysis_detail_metadata_type_0 mgnipy.emgapi_v2_client.models.m_gnify_analysis_detail_quality_control_summary_type_0 mgnipy.emgapi_v2_client.models.m_gnify_analysis_download_file mgnipy.emgapi_v2_client.models.m_gnify_analysis_typed_annotation mgnipy.emgapi_v2_client.models.m_gnify_analysis_with_annotations mgnipy.emgapi_v2_client.models.m_gnify_analysis_with_annotations_annotations mgnipy.emgapi_v2_client.models.m_gnify_analysis_with_annotations_annotations_additional_property_type_1 mgnipy.emgapi_v2_client.models.m_gnify_analysis_with_annotations_metadata_type_0 mgnipy.emgapi_v2_client.models.m_gnify_analysis_with_annotations_quality_control_summary_type_0 mgnipy.emgapi_v2_client.models.m_gnify_download_file_index_file mgnipy.emgapi_v2_client.models.m_gnify_download_file_index_file_index_type mgnipy.emgapi_v2_client.models.m_gnify_functional_analysis_annotation_type mgnipy.emgapi_v2_client.models.m_gnify_genome_catalogue_download_file mgnipy.emgapi_v2_client.models.m_gnify_genome_download_file mgnipy.emgapi_v2_client.models.m_gnify_publication mgnipy.emgapi_v2_client.models.m_gnify_publication_detail mgnipy.emgapi_v2_client.models.m_gnify_publication_detail_metadata mgnipy.emgapi_v2_client.models.m_gnify_publication_metadata mgnipy.emgapi_v2_client.models.m_gnify_sample mgnipy.emgapi_v2_client.models.m_gnify_sample_detail mgnipy.emgapi_v2_client.models.m_gnify_sample_detail_metadata mgnipy.emgapi_v2_client.models.m_gnify_sample_with_metadata mgnipy.emgapi_v2_client.models.m_gnify_sample_with_metadata_metadata mgnipy.emgapi_v2_client.models.m_gnify_study mgnipy.emgapi_v2_client.models.m_gnify_study_accession_lookup mgnipy.emgapi_v2_client.models.m_gnify_study_detail mgnipy.emgapi_v2_client.models.m_gnify_study_detail_metadata mgnipy.emgapi_v2_client.models.m_gnify_study_download_file mgnipy.emgapi_v2_client.models.m_gnify_study_metadata mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_additional_contained_genome_schema mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_analysed_run mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_assembly mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_assembly_detail mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_biome mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_genome_assembly_link_schema mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_genome_catalogue_list mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_genome_list mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_m_gnify_analysis mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_m_gnify_analysis_detail mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_m_gnify_analysis_typed_annotation mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_m_gnify_publication mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_m_gnify_sample mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_m_gnify_sample_with_metadata mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_m_gnify_study mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_super_study mgnipy.emgapi_v2_client.models.order_by_filter_literalaccession_accession_length_length_completeness_completeness_contamination_contamination_num_genomes_total_num_genomes_total mgnipy.emgapi_v2_client.models.order_by_filter_literalaccession_accession_length_length_completeness_completeness_contamination_contamination_num_genomes_total_num_genomes_total_order_type_0 mgnipy.emgapi_v2_client.models.order_by_filter_literalaccession_accession_updated_at_updated_at mgnipy.emgapi_v2_client.models.order_by_filter_literalaccession_accession_updated_at_updated_at_order_type_0 mgnipy.emgapi_v2_client.models.order_by_filter_literalpublished_year_published_year mgnipy.emgapi_v2_client.models.order_by_filter_literalpublished_year_published_year_order_type_0 mgnipy.emgapi_v2_client.models.order_by_filter_literalsample_title_sample_title_updated_at_updated_at mgnipy.emgapi_v2_client.models.order_by_filter_literalsample_title_sample_title_updated_at_updated_at_order_type_0 mgnipy.emgapi_v2_client.models.pipeline_versions mgnipy.emgapi_v2_client.models.publication_annotations mgnipy.emgapi_v2_client.models.publication_list_filters mgnipy.emgapi_v2_client.models.run_list_filters mgnipy.emgapi_v2_client.models.sample_list_filters mgnipy.emgapi_v2_client.models.schema mgnipy.emgapi_v2_client.models.study_list_filters mgnipy.emgapi_v2_client.models.super_study mgnipy.emgapi_v2_client.models.super_study_detail mgnipy.emgapi_v2_client.models.token_verify_input_schema mgnipy.emgapi_v2_client.models.webin_token_refresh_request mgnipy.emgapi_v2_client.models.webin_token_request mgnipy.emgapi_v2_client.models.webin_token_response mgnipy.emgapi_v2_client.types mgnipy.mgnipy mgnipy.proxies mgnipy.V2 mgnipy.V2.collect mgnipy.V2.collect.biosampler mgnipy.V2.collect.mgnetizer mgnipy.V2.datasets mgnipy.V2.datasets.annotate mgnipy.V2.datasets.taxonomic mgnipy.V2.mgnifier mgnipy.V2.mgnifier.describe mgnipy.V2.mgnifier.endpoints mgnipy.V2.mgnifier.metadata mgnipy.V2.mgnifier.query_executor mgnipy.V2.mgnifier.query_set mgnipy.V2.mixins mgnipy.V2.proxies mgnipy.V2.proxies.analyses mgnipy.V2.proxies.assemblies mgnipy.V2.proxies.biomes mgnipy.V2.proxies.catalogues mgnipy.V2.proxies.genomes mgnipy.V2.proxies.publications mgnipy.V2.proxies.runs mgnipy.V2.proxies.samples mgnipy.V2.proxies.studies MTG (class in mgnipy) (class in mgnipy.V2.datasets)

N

n_50 (GenomeDetail attribute), [1], [2], [3] (GenomeList attribute), [1], [2], [3] name (EuropePmcAnnotationTag attribute), [1], [2], [3] (GenomeCatalogueBase attribute), [1], [2], [3] (GenomeCatalogueDetail attribute), [1], [2], [3] (GenomeCatalogueList attribute), [1], [2], [3] nc_rnas (GenomeDetail attribute), [1], [2], [3] ncbi_genome_accession (GenomeDetail attribute), [1], [2], [3] (GenomeList attribute), [1], [2], [3] NCBI_REPORTING_STANDARD (ENASampleFields attribute), [1] ncbi_study_accession (GenomeDetail attribute), [1], [2], [3] (GenomeList attribute), [1], [2], [3] NinjaPaginationResponseSchemaAdditionalContainedGenomeSchema (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_additional_contained_genome_schema) NinjaPaginationResponseSchemaAnalysedRun (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_analysed_run) NinjaPaginationResponseSchemaAssembly (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_assembly) NinjaPaginationResponseSchemaAssemblyDetail (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_assembly_detail) NinjaPaginationResponseSchemaBiome (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_biome) NinjaPaginationResponseSchemaGenomeAssemblyLinkSchema (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_genome_assembly_link_schema) NinjaPaginationResponseSchemaGenomeCatalogueList (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_genome_catalogue_list) NinjaPaginationResponseSchemaGenomeList (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_genome_list) NinjaPaginationResponseSchemaMGnifyAnalysis (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_m_gnify_analysis) NinjaPaginationResponseSchemaMGnifyAnalysisDetail (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_m_gnify_analysis_detail) NinjaPaginationResponseSchemaMGnifyAnalysisTypedAnnotation (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_m_gnify_analysis_typed_annotation) NinjaPaginationResponseSchemaMGnifyPublication (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_m_gnify_publication) NinjaPaginationResponseSchemaMGnifySample (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_m_gnify_sample) NinjaPaginationResponseSchemaMGnifySampleWithMetadata (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_m_gnify_sample_with_metadata)

NinjaPaginationResponseSchemaMGnifyStudy (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_m_gnify_study) NinjaPaginationResponseSchemaSuperStudy (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.ninja_pagination_response_schema_super_study) NON_CODING_RNAS (DownloadType attribute), [1] num_contigs (GenomeDetail attribute), [1], [2], [3] (GenomeList attribute), [1], [2], [3] num_genomes_total (GenomeDetail attribute), [1], [2], [3] (GenomeList attribute), [1], [2], [3] NUM_GENOMES_TOTAL (GetGenomeCatalogueGenomesOrderType0 attribute), [1] (ListMgnifyGenomesOrderType0 attribute), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 attribute), [1] num_kmers (CobsMatch attribute), [1], [2], [3] num_kmers_found (CobsMatch attribute), [1], [2], [3] num_proteins (GenomeDetail attribute), [1], [2], [3] num_requests (Analyses property), [1], [2] (AnalysisDetail property), [1] (Assemblies property), [1], [2] (AssemblyDetail property), [1] (BiomeDetail property), [1] (Biomes property), [1], [2] (CatalogueDetail property), [1] (Catalogues property), [1], [2] (GenomeDetail property), [1] (Genomes property), [1], [2] (MGnifier property), [1], [2] (MGnifyDetail property) (MGnifyList property) (PrivateStudies property) (PublicationDetail property), [1] (Publications property), [1], [2] (QuerySet attribute) (QuerySet property) (RunDetail property), [1] (Runs property), [1], [2] (SampleDetail property), [1] (Samples property), [1], [2] (Studies property), [1], [2] (StudyDetail property), [1]

O

obs (DWCTaxaMGazine property) (MetadataSettersMixin property) (MGazine property), [1] (MTG property), [1] (TaxaMGazine property) obs_metadata() (DWCTaxaMGazine method) (MetadataSettersMixin method) (MGazine method), [1] (MTG method), [1] (TaxaMGazine method) obtain_auth_token() (MGnipyConfig method) order (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotal attribute), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAt attribute), [1], [2], [3] (OrderByFilterLiteralpublishedYearPublishedYear attribute), [1], [2], [3] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAt attribute), [1], [2], [3] OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotal (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.order_by_filter_literalaccession_accession_length_length_completeness_completeness_contamination_contamination_num_genomes_total_num_genomes_total) OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.order_by_filter_literalaccession_accession_length_length_completeness_completeness_contamination_contamination_num_genomes_total_num_genomes_total_order_type_0)

OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAt (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.order_by_filter_literalaccession_accession_updated_at_updated_at) OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.order_by_filter_literalaccession_accession_updated_at_updated_at_order_type_0) OrderByFilterLiteralpublishedYearPublishedYear (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.order_by_filter_literalpublished_year_published_year) OrderByFilterLiteralpublishedYearPublishedYearOrderType0 (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.order_by_filter_literalpublished_year_published_year_order_type_0) OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAt (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.order_by_filter_literalsample_title_sample_title_updated_at_updated_at) OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.order_by_filter_literalsample_title_sample_title_updated_at_updated_at_order_type_0) organism (MGnifyAnalysisTypedAnnotation attribute), [1], [2], [3] OTHER (DownloadFileType attribute), [1] (DownloadType attribute), [1] other (PublicationAnnotations attribute), [1], [2], [3] other_stats (GenomeCatalogueBase attribute), [1], [2], [3] (GenomeCatalogueDetail attribute), [1], [2], [3] (GenomeCatalogueList attribute), [1], [2], [3]

P

page (Input attribute), [1], [2], [3] page() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] page_param_iter() (DescribeEmgapiModule method) page_size (Input attribute), [1], [2], [3] page_size() (Analyses method), [1], [2] (Assemblies method), [1], [2] (Biomes method), [1], [2] (Catalogues method), [1], [2] (Genomes method), [1], [2] (MGnifyList method) (PrivateStudies method) (Publications method), [1], [2] (Runs method), [1], [2] (Samples method), [1], [2] (Studies method), [1], [2] pages (MGnifyMetadata property) pangenome_accessory_size (GenomeDetail attribute), [1], [2], [3] pangenome_core_size (GenomeDetail attribute), [1], [2], [3] pangenome_size (GenomeDetail attribute), [1], [2], [3] params (Analyses property), [1], [2] (AnalysisDetail property), [1] (Assemblies property), [1], [2] (AssemblyDetail property), [1] (BiomeDetail property), [1] (Biomes property), [1], [2] (BioSampler property), [1] (CatalogueDetail property), [1] (Catalogues property), [1], [2] (GenomeDetail property), [1] (Genomes property), [1], [2] (MGnetizer attribute), [1] (MGnetizer property), [1] (MGnifier property), [1], [2] (MGnifyDetail property) (MGnifyList property) (PrivateStudies property) (PublicationDetail property), [1] (Publications property), [1], [2] (QuerySet attribute) (QuerySet property) (RunDetail property), [1] (Runs property), [1], [2] (SampleDetail property), [1] (Samples property), [1], [2] (Studies property), [1], [2] (StudyDetail property), [1] parent_identifier (MGnifyAnalysisDownloadFile attribute), [1], [2], [3] (MGnifyGenomeCatalogueDownloadFile attribute), [1] (MGnifyGenomeDownloadFile attribute), [1], [2], [3] (MGnifyStudyDownloadFile attribute), [1], [2], [3] parent_is_private (MGnifyAnalysisDownloadFile attribute), [1], [2], [3] (MGnifyStudyDownloadFile attribute), [1], [2], [3] parent_results_dir (MGnifyAnalysisDownloadFile attribute), [1], [2], [3] (MGnifyStudyDownloadFile attribute), [1], [2], [3] PARENT_STUDY_ACCESSION (ENAStudyFields attribute), [1] parse_file() (MGnipyConfig class method) parse_obj() (MGnipyConfig class method) parse_raw() (MGnipyConfig class method) parsed (Response attribute) partition() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1]

password (WebinTokenRequest attribute), [1], [2], [3] path (DownloadFileIndexFile attribute), [1], [2], [3] (MGnifyAnalysisDownloadFile attribute), [1], [2], [3] (MGnifyDownloadFileIndexFile attribute), [1], [2], [3] (MGnifyGenomeCatalogueDownloadFile attribute), [1] (MGnifyGenomeDownloadFile attribute), [1], [2], [3] (MGnifyStudyDownloadFile attribute), [1], [2], [3] patric_genome_accession (GenomeDetail attribute), [1], [2], [3] (GenomeList attribute), [1], [2], [3] payload (File attribute) percent_kmers_found (CobsMatch attribute), [1], [2], [3] PFAMS (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType attribute), [1] (MGnifyFunctionalAnalysisAnnotationType attribute), [1] PH (ENASampleFields attribute), [1] pipeline_version (MGnifyAnalysis attribute), [1], [2], [3] (MGnifyAnalysisDetail attribute), [1], [2], [3] (MGnifyAnalysisWithAnnotations attribute), [1], [2], [3] pipeline_version_tag (GenomeCatalogueBase attribute), [1], [2], [3] (GenomeCatalogueDetail attribute), [1], [2], [3] (GenomeCatalogueList attribute), [1], [2], [3] PipelineVersions (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.pipeline_versions) postfix (EuropePmcAnnotationMention attribute), [1], [2], [3] prefix (AuthenticatedClient attribute), [1], [2], [3], [4], [5] (EuropePmcAnnotationMention attribute), [1], [2], [3] prep_obs() (in module mgnipy.V2.datasets.taxonomic) preview() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] PrivateStudies (class in mgnipy.V2.proxies.studies) progress (Analyses property), [1], [2] (AnalysisDetail property), [1] (Assemblies property), [1], [2] (AssemblyDetail property), [1] (BiomeDetail property), [1] (Biomes property), [1], [2] (CatalogueDetail property), [1] (Catalogues property), [1], [2] (GenomeDetail property), [1] (Genomes property), [1], [2] (MGnifier property), [1], [2] (MGnifyDetail property) (MGnifyList property) (PrivateStudies property) (PublicationDetail property), [1] (Publications property), [1], [2] (RunDetail property), [1] (Runs property), [1], [2] (SampleDetail property), [1] (Samples property), [1], [2] (Studies property), [1], [2] (StudyDetail property), [1] PROJECT_NAME (ENASampleFields attribute), [1] (ENAStudyFields attribute), [1] PROKARYOTES (GenomeCatalogueBaseCatalogueType attribute), [1] (GenomeCatalogueDetailCatalogueType attribute), [1] (GenomeCatalogueListCatalogueType attribute), [1] protein_catalogue_description (GenomeCatalogueBase attribute), [1], [2], [3] (GenomeCatalogueDetail attribute), [1], [2], [3] (GenomeCatalogueList attribute), [1], [2], [3] protein_catalogue_name (GenomeCatalogueBase attribute), [1], [2], [3] (GenomeCatalogueDetail attribute), [1], [2], [3] (GenomeCatalogueList attribute), [1], [2], [3] PROTOCOL_LABEL (ENASampleFields attribute), [1] provider (EuropePmcAnnotationMention attribute), [1], [2], [3] PublicationAnnotations (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.publication_annotations) PublicationDetail (class in mgnipy.proxies) (class in mgnipy.V2.proxies.publications) PublicationListFilters (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.publication_list_filters) Publications (class in mgnipy.proxies) (class in mgnipy.V2) (class in mgnipy.V2.proxies.publications) PUBLISHED (GenomeCatalogueBaseStatus attribute), [1] (GenomeCatalogueDetailStatus attribute), [1] (GenomeCatalogueListStatus attribute), [1] published_after (PublicationListFilters attribute), [1], [2], [3] published_before (PublicationListFilters attribute), [1], [2], [3] PUBLISHED_YEAR (ListMgnifyPublicationsOrderType0 attribute), [1] published_year (MGnifyPublication attribute), [1], [2], [3] (MGnifyPublicationDetail attribute), [1], [2], [3] PUBLISHED_YEAR (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 attribute), [1] pubmed_id (MGnifyPublication attribute), [1], [2], [3] (MGnifyPublicationDetail attribute), [1], [2], [3]

Q

QUALITY_CONTROL (DownloadType attribute), [1] quality_control_summary (MGnifyAnalysisDetail attribute), [1], [2], [3] (MGnifyAnalysisWithAnnotations attribute), [1], [2], [3]

queries() (QuerySet method) query (GenomeSearchData attribute), [1], [2], [3] QueryExecutor (class in mgnipy.V2.mgnifier.query_executor) QuerySet (class in mgnipy.V2.mgnifier.query_set)

R

raise_on_unexpected_status (AuthenticatedClient attribute), [1], [2], [3], [4], [5] (Client attribute), [1], [2], [3], [4], [5] read_run (MGnifyAnalysisDetail attribute), [1], [2], [3] (MGnifyAnalysisWithAnnotations attribute), [1], [2], [3] reads_study_accession (AssemblyDetail attribute), [1], [2], [3] READY (GenomeCatalogueBaseStatus attribute), [1] (GenomeCatalogueDetailStatus attribute), [1] (GenomeCatalogueListStatus attribute), [1] records (MGnifyMetadata property) refresh_auth_token() (MGnipyConfig method) RELATED_SAMPLE_ACCESSION (ENASampleFields attribute), [1] related_studies (SuperStudyDetail attribute), [1], [2], [3] removeprefix() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] removesuffix() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] renew_client() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (BioSampler method), [1] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (ClientManagerMixin method) (DWCTaxaMGazine method) (GenomeDetail method), [1] (Genomes method), [1], [2] (MGazine method), [1] (MGnetizer method), [1] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (MGnipy method), [1] (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] (TaxaMGazine method) replace() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] request_page() (QueryExecutor method) request_url (Analyses property), [1], [2] (AnalysisDetail property), [1] (Assemblies property), [1], [2] (AssemblyDetail property), [1] (BiomeDetail property), [1] (Biomes property), [1], [2] (CatalogueDetail property), [1] (Catalogues property), [1], [2] (GenomeDetail property), [1] (Genomes property), [1], [2] (MGnifier property), [1], [2] (MGnifyDetail property) (MGnifyList property) (PrivateStudies property) (PublicationDetail property), [1] (Publications property), [1], [2] (QuerySet property) (RunDetail property), [1] (Runs property), [1], [2] (SampleDetail property), [1] (Samples property), [1], [2] (Studies property), [1], [2] (StudyDetail property), [1] reset_iterator() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] resolve_auth_token() (MGnipyConfig method) resolve_query_string() (DescribeEmgapiModule method) RESOURCE (Analyses attribute), [1], [2] resource (Analyses property), [1], [2] RESOURCE (AnalysisDetail attribute), [1] resource (AnalysisDetail property), [1] RESOURCE (Assemblies attribute), [1], [2] resource (Assemblies property), [1], [2] RESOURCE (AssemblyDetail attribute), [1] resource (AssemblyDetail property), [1] RESOURCE (BiomeDetail attribute), [1] resource (BiomeDetail property), [1] RESOURCE (Biomes attribute), [1], [2] resource (Biomes property), [1], [2] (BioSampler property), [1] RESOURCE (CatalogueDetail attribute), [1] resource (CatalogueDetail property), [1] RESOURCE (Catalogues attribute), [1], [2] resource (Catalogues property), [1], [2] RESOURCE (GenomeDetail attribute), [1] resource (GenomeDetail property), [1] RESOURCE (Genomes attribute), [1], [2] resource (Genomes property), [1], [2] (MGnetizer attribute), [1] (MGnetizer property), [1] (MGnifier property), [1], [2] RESOURCE (MGnifyDetail attribute) resource (MGnifyDetail property) RESOURCE (MGnifyList attribute) resource (MGnifyList property) RESOURCE (PrivateStudies attribute) resource (PrivateStudies property) RESOURCE (PublicationDetail attribute), [1] resource (PublicationDetail property), [1] RESOURCE (Publications attribute), [1], [2] resource (Publications property), [1], [2] (QuerySet attribute) (QuerySet property) RESOURCE (RunDetail attribute), [1] resource (RunDetail property), [1] RESOURCE (Runs attribute), [1], [2] resource (Runs property), [1], [2] RESOURCE (SampleDetail attribute), [1] resource (SampleDetail property), [1] RESOURCE (Samples attribute), [1], [2] resource (Samples property), [1], [2] RESOURCE (Studies attribute), [1], [2] resource (Studies property), [1], [2] RESOURCE (StudyDetail attribute), [1] resource (StudyDetail property), [1] Response (class in mgnipy.emgapi_v2_client.types)

result_directory (GenomeCatalogueBase attribute), [1], [2], [3] (GenomeCatalogueDetail attribute), [1], [2], [3] (GenomeCatalogueList attribute), [1], [2], [3] results (Analyses property), [1], [2] (AnalysisDetail property), [1] (Assemblies property), [1], [2] (AssemblyDetail property), [1] (BiomeDetail property), [1] (Biomes property), [1], [2] (BiomesTreeMixin property) (CatalogueDetail property), [1] (Catalogues property), [1], [2] (GenomeDetail property), [1] (Genomes property), [1], [2] (GenomeSearchData attribute), [1], [2], [3] (MGnifier property), [1], [2] (MGnifyDetail property) (MGnifyList property) (MGnifyMetadata property) (PrivateStudies property) (PublicationDetail property), [1] (Publications property), [1], [2] (QuerySet attribute) (QuerySet property) (RunDetail property), [1] (Runs property), [1], [2] (SampleDetail property), [1] (Samples property), [1], [2] (Studies property), [1], [2] (StudyDetail property), [1] results_dir (MGnifyAnalysisDetail attribute), [1], [2], [3] (MGnifyAnalysisWithAnnotations attribute), [1], [2], [3] ResultsHandler (class in mgnipy.V2.mgnifier.metadata) RETIRED (GenomeCatalogueBaseStatus attribute), [1] (GenomeCatalogueDetailStatus attribute), [1] (GenomeCatalogueListStatus attribute), [1] rfind() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] rindex() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] rjust() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] rna_16s (GenomeDetail attribute), [1], [2], [3] rna_18s (GenomeDetail attribute), [1], [2], [3] rna_23s (GenomeDetail attribute), [1], [2], [3] rna_28s (GenomeDetail attribute), [1], [2], [3] rna_5_8s (GenomeDetail attribute), [1], [2], [3] rna_5s (GenomeDetail attribute), [1], [2], [3] rpartition() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] rsplit() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] rstrip() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] run (MGnifyAnalysis attribute), [1], [2], [3] (MGnifyAnalysisDetail attribute), [1], [2], [3] (MGnifyAnalysisWithAnnotations attribute), [1], [2], [3] run_accession (AdditionalContainedGenomeSchema attribute), [1], [2], [3] (AssemblyDetail attribute), [1], [2], [3] RunDetail (class in mgnipy.proxies) (class in mgnipy.V2.proxies.runs) RunListFilters (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.run_list_filters) Runs (class in mgnipy.proxies) (class in mgnipy.V2) (class in mgnipy.V2.proxies.runs) runs_accessions (DWCTaxaMGazine attribute) (DWCTaxaMGazine property) (MTG attribute), [1] (MTG property), [1] (TaxaMGazine attribute) (TaxaMGazine property)

S

SALINITY (ENASampleFields attribute), [1] sample (AnalysedRunDetail attribute), [1], [2], [3] (MGnifyAnalysis attribute), [1], [2], [3] (MGnifyAnalysisDetail attribute), [1], [2], [3] (MGnifyAnalysisWithAnnotations attribute), [1], [2], [3] sample_accession (AnalysedRun attribute), [1], [2], [3] (AnalysedRunDetail attribute), [1], [2], [3] (AssemblyDetail attribute), [1], [2], [3] SAMPLE_ACCESSION (ENASampleFields attribute), [1] SAMPLE_ALIAS (ENASampleFields attribute), [1] SAMPLE_CAPTURE_STATUS (ENASampleFields attribute), [1] SAMPLE_COLLECTION (ENASampleFields attribute), [1] SAMPLE_DESCRIPTION (ENASampleFields attribute), [1] SAMPLE_MATERIAL (ENASampleFields attribute), [1] sample_processing (PublicationAnnotations attribute), [1], [2], [3] SAMPLE_TITLE (ENASampleFields attribute), [1] (ListMgnifySamplesOrderType0 attribute), [1] sample_title (MGnifySample attribute), [1], [2], [3] (MGnifySampleDetail attribute), [1], [2], [3] (MGnifySampleWithMetadata attribute), [1], [2], [3] SAMPLE_TITLE (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 attribute), [1] SampleDetail (class in mgnipy.proxies) (class in mgnipy.V2.proxies.samples) SampleListFilters (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.sample_list_filters) Samples (class in mgnipy.proxies) (class in mgnipy.V2) (class in mgnipy.V2.proxies.samples) SAMPLING_CAMPAIGN (ENASampleFields attribute), [1] SAMPLING_PLATFORM (ENASampleFields attribute), [1] SAMPLING_SITE (ENASampleFields attribute), [1] Schema (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.schema) schema() (MGnipyConfig class method) schema_json() (MGnipyConfig class method) SCIENTIFIC_NAME (ENASampleFields attribute), [1] (ENAStudyFields attribute), [1] search (GenomeFilters attribute), [1], [2], [3] (SampleListFilters attribute), [1], [2], [3] (StudyListFilters attribute), [1], [2], [3] search_results (Analyses property), [1], [2] (AnalysisDetail property), [1] (Assemblies property), [1], [2] (AssemblyDetail property), [1] (BiomeDetail property), [1] (Biomes property), [1], [2] (CatalogueDetail property), [1] (Catalogues property), [1], [2] (GenomeDetail property), [1] (Genomes property), [1], [2] (MGnifier property), [1], [2] (MGnifyDetail property) (MGnifyList property) (PrivateStudies property) (PublicationDetail property), [1] (Publications property), [1], [2] (RunDetail property), [1] (Runs property), [1], [2] (SampleDetail property), [1] (Samples property), [1], [2] (Studies property), [1], [2] (StudyDetail property), [1] SECONDARY_SAMPLE_ACCESSION (ENASampleFields attribute), [1] SECONDARY_STUDY_ACCESSION (ENAStudyFields attribute), [1] SECONDARY_STUDY_ALIAS (ENAStudyFields attribute), [1] SECONDARY_STUDY_CENTER_NAME (ENAStudyFields attribute), [1] section (EuropePmcAnnotationMention attribute), [1], [2], [3] SEQUENCE_DATA (DownloadType attribute), [1] SEQUENCING_METHOD (ENASampleFields attribute), [1] serialize_base_url() (MGnipyConfig method) SEROTYPE (ENASampleFields attribute), [1] SEROVAR (ENASampleFields attribute), [1] set_async_httpx_client() (AuthenticatedClient method), [1], [2] (Client method), [1], [2] set_httpx_client() (AuthenticatedClient method), [1], [2] (Client method), [1], [2] settings_customise_sources() (MGnipyConfig class method) SEX (ENASampleFields attribute), [1] short_desc (DWCTaxaMGazine property) (MGazine attribute), [1] (MGazine property), [1] (TaxaMGazine property) short_description (MGnifyAnalysisDownloadFile attribute), [1], [2], [3] (MGnifyGenomeCatalogueDownloadFile attribute), [1] (MGnifyGenomeDownloadFile attribute), [1], [2], [3] (MGnifyStudyDownloadFile attribute), [1], [2], [3] show_tree() (BiomeDetail method), [1] (Biomes method), [1], [2] (BiomesTreeMixin method) slug (SuperStudy attribute), [1], [2], [3] (SuperStudyDetail attribute), [1], [2], [3] species_rep (GenomeAssemblyLinkSchema attribute), [1], [2], [3] SPECIMEN_VOUCHER (ENASampleFields attribute), [1] split() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] splitlines() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] startswith() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] STATISTICS (DownloadType attribute), [1] status (AssemblyDetail attribute), [1], [2], [3] STATUS (ENASampleFields attribute), [1] (ENAStudyFields attribute), [1] status (GenomeCatalogueBase attribute), [1], [2], [3] (GenomeCatalogueDetail attribute), [1], [2], [3] (GenomeCatalogueList attribute), [1], [2], [3] status() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (BioSampler method), [1] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (ClientManagerMixin method) (DWCTaxaMGazine method) (GenomeDetail method), [1] (Genomes method), [1], [2] (MGazine method), [1] (MGnetizer method), [1] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (MGnipy method), [1] (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] (TaxaMGazine method) status_code (Response attribute) STRAIN (ENASampleFields attribute), [1] (ENAStudyFields attribute), [1] stream() (DWCTaxaMGazine method) (MGazine method), [1] (StreamMixin method) (TaxaMGazine method)

stream_biom() (DWCTaxaMGazine method) (MGazine method), [1] (StreamMixin method) (TaxaMGazine method) stream_fasta() (DWCTaxaMGazine method) (MGazine method), [1] (StreamMixin method) (TaxaMGazine method) stream_gff() (DWCTaxaMGazine method) (MGazine method), [1] (StreamMixin method) (TaxaMGazine method) stream_gzipped() (DWCTaxaMGazine method) (MGazine method), [1] (StreamMixin method) (TaxaMGazine method) stream_html() (DWCTaxaMGazine method) (MGazine method), [1] (StreamMixin method) (TaxaMGazine method) stream_json() (DWCTaxaMGazine method) (MGazine method), [1] (StreamMixin method) (TaxaMGazine method) stream_jsonl() (DWCTaxaMGazine method) (MGazine method), [1] (StreamMixin method) (TaxaMGazine method) stream_pandas() (DWCTaxaMGazine method) (MGazine method), [1] (StreamMixin method) (TaxaMGazine method) stream_polars() (DWCTaxaMGazine method) (MGazine method), [1] (StreamMixin method) (TaxaMGazine method) stream_tree() (DWCTaxaMGazine method) (MGazine method), [1] (StreamMixin method) (TaxaMGazine method) stream_txt() (DWCTaxaMGazine method) (MGazine method), [1] (StreamMixin method) (TaxaMGazine method) StreamMixin (class in mgnipy.V2.mixins) strip() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] Studies (class in mgnipy.proxies) (class in mgnipy.V2) (class in mgnipy.V2.proxies.studies) studies (MGnifyPublicationDetail attribute), [1], [2], [3] (MGnifySampleDetail attribute), [1], [2], [3] study (AnalysedRunDetail attribute), [1], [2], [3] study_accession (AnalysedRun attribute), [1], [2], [3] (AnalysedRunDetail attribute), [1], [2], [3] STUDY_ACCESSION (ENASampleFields attribute), [1] (ENAStudyFields attribute), [1] study_accession (MGnifyAnalysis attribute), [1], [2], [3] (MGnifyAnalysisDetail attribute), [1], [2], [3] (MGnifyAnalysisWithAnnotations attribute), [1], [2], [3] STUDY_ALIAS (ENAStudyFields attribute), [1] STUDY_DESCRIPTION (ENAStudyFields attribute), [1] STUDY_NAME (ENAStudyFields attribute), [1] STUDY_TITLE (ENAStudyFields attribute), [1] StudyDetail (class in mgnipy.proxies) (class in mgnipy.V2.proxies.studies) StudyListFilters (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.study_list_filters) SUB_SPECIES (ENASampleFields attribute), [1] SUB_STRAIN (ENASampleFields attribute), [1] sub_url() (DescribeEmgapiModule method) SUBMISSION_ACCESSION (ENASampleFields attribute), [1] SUBMISSION_TOOL (ENASampleFields attribute), [1] (ENAStudyFields attribute), [1] SUBMITTED_HOST_SEX (ENASampleFields attribute), [1] SuperStudy (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.super_study) SuperStudyDetail (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.super_study_detail) SVG (DownloadFileType attribute), [1] swapcase() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] sync() (in module mgnipy.emgapi_v2_client.api.analyses.analysis_get_mgnify_analysis_with_annotations) (in module mgnipy.emgapi_v2_client.api.analyses.analysis_get_mgnify_analysis_with_annotations_of_type) (in module mgnipy.emgapi_v2_client.api.analyses.get_mgnify_analysis) (in module mgnipy.emgapi_v2_client.api.analyses.list_mgnify_analyses) (in module mgnipy.emgapi_v2_client.api.assemblies.get_assembly) (in module mgnipy.emgapi_v2_client.api.assemblies.list_additional_contained_genomes_for_assembly) (in module mgnipy.emgapi_v2_client.api.assemblies.list_analyses_for_assembly) (in module mgnipy.emgapi_v2_client.api.assemblies.list_assemblies) (in module mgnipy.emgapi_v2_client.api.assemblies.list_genome_links_for_assembly) (in module mgnipy.emgapi_v2_client.api.authentication.token_obtain_sliding) (in module mgnipy.emgapi_v2_client.api.authentication.token_refresh_sliding) (in module mgnipy.emgapi_v2_client.api.authentication.token_verify) (in module mgnipy.emgapi_v2_client.api.genomes.genome_fragment_search) (in module mgnipy.emgapi_v2_client.api.genomes.get_genome_annotations) (in module mgnipy.emgapi_v2_client.api.genomes.get_genome_catalogue) (in module mgnipy.emgapi_v2_client.api.genomes.get_genome_catalogue_genomes) (in module mgnipy.emgapi_v2_client.api.genomes.get_mgnify_genome) (in module mgnipy.emgapi_v2_client.api.genomes.list_genome_catalogues) (in module mgnipy.emgapi_v2_client.api.genomes.list_mgnify_genomes) (in module mgnipy.emgapi_v2_client.api.miscellaneous.list_mgnify_biomes) (in module mgnipy.emgapi_v2_client.api.private_data.list_private_mgnify_studies) (in module mgnipy.emgapi_v2_client.api.publications.get_mgnify_publication) (in module mgnipy.emgapi_v2_client.api.publications.get_mgnify_publication_annotations) (in module mgnipy.emgapi_v2_client.api.publications.list_mgnify_publications) (in module mgnipy.emgapi_v2_client.api.runs.get_analysed_run) (in module mgnipy.emgapi_v2_client.api.runs.list_analysed_runs) (in module mgnipy.emgapi_v2_client.api.runs.list_runs_analyses) (in module mgnipy.emgapi_v2_client.api.runs.list_runs_assemblies) (in module mgnipy.emgapi_v2_client.api.samples.get_mgnify_sample) (in module mgnipy.emgapi_v2_client.api.samples.list_mgnify_samples) (in module mgnipy.emgapi_v2_client.api.samples.list_sample_assemblies) (in module mgnipy.emgapi_v2_client.api.samples.list_sample_runs) (in module mgnipy.emgapi_v2_client.api.studies.get_mgnify_study) (in module mgnipy.emgapi_v2_client.api.studies.get_mgnify_study_accession_by_insdc_accession) (in module mgnipy.emgapi_v2_client.api.studies.get_super_study) (in module mgnipy.emgapi_v2_client.api.studies.list_mgnify_studies) (in module mgnipy.emgapi_v2_client.api.studies.list_mgnify_study_analyses) (in module mgnipy.emgapi_v2_client.api.studies.list_mgnify_study_publications) (in module mgnipy.emgapi_v2_client.api.studies.list_mgnify_study_samples) (in module mgnipy.emgapi_v2_client.api.studies.list_super_studies) sync_detailed() (in module mgnipy.emgapi_v2_client.api.analyses.analysis_get_mgnify_analysis_with_annotations) (in module mgnipy.emgapi_v2_client.api.analyses.analysis_get_mgnify_analysis_with_annotations_of_type) (in module mgnipy.emgapi_v2_client.api.analyses.get_mgnify_analysis) (in module mgnipy.emgapi_v2_client.api.analyses.list_mgnify_analyses) (in module mgnipy.emgapi_v2_client.api.assemblies.get_assembly) (in module mgnipy.emgapi_v2_client.api.assemblies.list_additional_contained_genomes_for_assembly) (in module mgnipy.emgapi_v2_client.api.assemblies.list_analyses_for_assembly) (in module mgnipy.emgapi_v2_client.api.assemblies.list_assemblies) (in module mgnipy.emgapi_v2_client.api.assemblies.list_genome_links_for_assembly) (in module mgnipy.emgapi_v2_client.api.authentication.token_obtain_sliding) (in module mgnipy.emgapi_v2_client.api.authentication.token_refresh_sliding) (in module mgnipy.emgapi_v2_client.api.authentication.token_verify) (in module mgnipy.emgapi_v2_client.api.genomes.genome_fragment_search) (in module mgnipy.emgapi_v2_client.api.genomes.get_genome_annotations) (in module mgnipy.emgapi_v2_client.api.genomes.get_genome_catalogue) (in module mgnipy.emgapi_v2_client.api.genomes.get_genome_catalogue_genomes) (in module mgnipy.emgapi_v2_client.api.genomes.get_mgnify_genome) (in module mgnipy.emgapi_v2_client.api.genomes.list_genome_catalogues) (in module mgnipy.emgapi_v2_client.api.genomes.list_mgnify_genomes) (in module mgnipy.emgapi_v2_client.api.miscellaneous.list_mgnify_biomes) (in module mgnipy.emgapi_v2_client.api.private_data.list_private_mgnify_studies) (in module mgnipy.emgapi_v2_client.api.publications.get_mgnify_publication) (in module mgnipy.emgapi_v2_client.api.publications.get_mgnify_publication_annotations) (in module mgnipy.emgapi_v2_client.api.publications.list_mgnify_publications) (in module mgnipy.emgapi_v2_client.api.runs.get_analysed_run) (in module mgnipy.emgapi_v2_client.api.runs.list_analysed_runs) (in module mgnipy.emgapi_v2_client.api.runs.list_runs_analyses) (in module mgnipy.emgapi_v2_client.api.runs.list_runs_assemblies) (in module mgnipy.emgapi_v2_client.api.samples.get_mgnify_sample) (in module mgnipy.emgapi_v2_client.api.samples.list_mgnify_samples) (in module mgnipy.emgapi_v2_client.api.samples.list_sample_assemblies) (in module mgnipy.emgapi_v2_client.api.samples.list_sample_runs) (in module mgnipy.emgapi_v2_client.api.studies.get_mgnify_study) (in module mgnipy.emgapi_v2_client.api.studies.get_mgnify_study_accession_by_insdc_accession) (in module mgnipy.emgapi_v2_client.api.studies.get_super_study) (in module mgnipy.emgapi_v2_client.api.studies.list_mgnify_studies) (in module mgnipy.emgapi_v2_client.api.studies.list_mgnify_study_analyses) (in module mgnipy.emgapi_v2_client.api.studies.list_mgnify_study_publications) (in module mgnipy.emgapi_v2_client.api.studies.list_mgnify_study_samples) (in module mgnipy.emgapi_v2_client.api.studies.list_super_studies)

T

TAG (ENASampleFields attribute), [1] (ENAStudyFields attribute), [1] tags (EuropePmcAnnotationMention attribute), [1], [2], [3] TARGET_GENE (ENASampleFields attribute), [1] TAX_DIVISION (ENAStudyFields attribute), [1] TAX_ID (ENASampleFields attribute), [1] (ENAStudyFields attribute), [1] TAX_LINEAGE (ENASampleFields attribute), [1] (ENAStudyFields attribute), [1] TaxaMGazine (class in mgnipy.V2.datasets.taxonomic) taxon_lineage (GenomeDetail attribute), [1], [2], [3] (GenomeList attribute), [1], [2], [3] (GenomeSchema attribute), [1], [2], [3] TAXONOMIC_ANALYSIS (DownloadType attribute), [1] TAXONOMIC_CLASSIFICATION (ENASampleFields attribute), [1] TAXONOMIC_IDENTITY_MARKER (ENASampleFields attribute), [1] taxonomic_metadata (DWCTaxaMGazine attribute) (TaxaMGazine attribute) taxonomic_metadata() (DWCTaxaMGazine method) (TaxaMGazine method) TAXONOMIES_DADA2_PR2 (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType attribute), [1] (MGnifyFunctionalAnalysisAnnotationType attribute), [1] TAXONOMIES_DADA2_SILVA (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType attribute), [1] (MGnifyFunctionalAnalysisAnnotationType attribute), [1] TAXONOMIES_ITS_ONE_DB (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType attribute), [1] (MGnifyFunctionalAnalysisAnnotationType attribute), [1] TAXONOMIES_LSU (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType attribute), [1] (MGnifyFunctionalAnalysisAnnotationType attribute), [1] TAXONOMIES_PR2 (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType attribute), [1] (MGnifyFunctionalAnalysisAnnotationType attribute), [1] TAXONOMIES_SSU (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType attribute), [1] (MGnifyFunctionalAnalysisAnnotationType attribute), [1] TAXONOMIES_UNITE (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType attribute), [1] (MGnifyFunctionalAnalysisAnnotationType attribute), [1] TEMPERATURE (ENASampleFields attribute), [1] threshold (GenomeSearchData attribute), [1], [2], [3] TISSUE_LIB (ENASampleFields attribute), [1] TISSUE_TYPE (ENASampleFields attribute), [1] title (EuropePmcAnnotationGroup attribute), [1], [2], [3] (MGnifyPublication attribute), [1], [2], [3] (MGnifyPublicationDetail attribute), [1], [2], [3] (MGnifyStudy attribute), [1], [2], [3] (MGnifyStudyDetail attribute), [1], [2], [3] (PublicationListFilters attribute), [1], [2], [3] (SuperStudy attribute), [1], [2], [3] (SuperStudyDetail attribute), [1], [2], [3] title() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] to_anndata (DWCTaxaMGazine attribute) (TaxaMGazine attribute) to_anndata() (MTG method), [1] (TaxaMGazine method) to_dict() (AdditionalContainedGenomeSchema method), [1] (AnalysedRun method), [1] (AnalysedRunDetail method), [1] (AnnotatedResult method), [1] (Assembly method), [1] (AssemblyDetail method), [1] (AssemblyDetailMetadataType0 method), [1] (AssemblyDetailStatusType0 method), [1] (Biome method), [1] (BiomeListFilters method), [1] (CobsMatch method), [1] (DownloadFileIndexFile method), [1] (EuropePmcAnnotation method), [1] (EuropePmcAnnotationGroup method), [1] (EuropePmcAnnotationMention method), [1] (EuropePmcAnnotationTag method), [1] (GenomeAssemblyLinkSchema method), [1] (GenomeCatalogueBase method), [1] (GenomeCatalogueBaseOtherStatsType0 method), [1] (GenomeCatalogueDetail method), [1] (GenomeCatalogueDetailOtherStatsType0 method), [1] (GenomeCatalogueList method), [1] (GenomeCatalogueListOtherStatsType0 method), [1] (GenomeDetail method), [1] (GenomeFilters method), [1] (GenomeFragmentSearchOut method), [1] (GenomeList method), [1] (GenomeSchema method), [1] (GenomeSearchData method), [1] (GenomeWithAnnotations method), [1] (GenomeWithAnnotationsAnnotations method), [1] (Input method), [1] (MGnifyAnalysis method), [1] (MGnifyAnalysisDetail method), [1] (MGnifyAnalysisDetailMetadataType0 method), [1] (MGnifyAnalysisDetailQualityControlSummaryType0 method), [1] (MGnifyAnalysisDownloadFile method), [1] (MGnifyAnalysisTypedAnnotation method), [1] (MGnifyAnalysisWithAnnotations method), [1] (MGnifyAnalysisWithAnnotationsAnnotations method), [1] (MGnifyAnalysisWithAnnotationsAnnotationsAdditionalPropertyType1 method), [1] (MGnifyAnalysisWithAnnotationsMetadataType0 method), [1] (MGnifyAnalysisWithAnnotationsQualityControlSummaryType0 method), [1] (MGnifyDownloadFileIndexFile method), [1] (MGnifyGenomeCatalogueDownloadFile method), [1] (MGnifyGenomeDownloadFile method), [1] (MGnifyPublication method), [1] (MGnifyPublicationDetail method), [1] (MGnifyPublicationDetailMetadata method), [1] (MGnifyPublicationMetadata method), [1] (MGnifySample method), [1] (MGnifySampleDetail method), [1] (MGnifySampleDetailMetadata method), [1] (MGnifySampleWithMetadata method), [1] (MGnifySampleWithMetadataMetadata method), [1] (MGnifyStudy method), [1] (MGnifyStudyAccessionLookup method), [1] (MGnifyStudyDetail method), [1] (MGnifyStudyDetailMetadata method), [1] (MGnifyStudyDownloadFile method), [1] (MGnifyStudyMetadata method), [1] (NinjaPaginationResponseSchemaAdditionalContainedGenomeSchema method), [1] (NinjaPaginationResponseSchemaAnalysedRun method), [1] (NinjaPaginationResponseSchemaAssembly method), [1] (NinjaPaginationResponseSchemaAssemblyDetail method), [1] (NinjaPaginationResponseSchemaBiome method), [1] (NinjaPaginationResponseSchemaGenomeAssemblyLinkSchema method), [1] (NinjaPaginationResponseSchemaGenomeCatalogueList method), [1] (NinjaPaginationResponseSchemaGenomeList method), [1] (NinjaPaginationResponseSchemaMGnifyAnalysis method), [1] (NinjaPaginationResponseSchemaMGnifyAnalysisDetail method), [1] (NinjaPaginationResponseSchemaMGnifyAnalysisTypedAnnotation method), [1] (NinjaPaginationResponseSchemaMGnifyPublication method), [1] (NinjaPaginationResponseSchemaMGnifySample method), [1] (NinjaPaginationResponseSchemaMGnifySampleWithMetadata method), [1] (NinjaPaginationResponseSchemaMGnifyStudy method), [1] (NinjaPaginationResponseSchemaSuperStudy method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotal method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAt method), [1] (OrderByFilterLiteralpublishedYearPublishedYear method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAt method), [1] (PublicationAnnotations method), [1] (PublicationListFilters method), [1] (RunListFilters method), [1] (SampleListFilters method), [1] (Schema method), [1] (StudyListFilters method), [1] (SuperStudy method), [1] (SuperStudyDetail method), [1] (TokenVerifyInputSchema method), [1] (WebinTokenRefreshRequest method), [1] (WebinTokenRequest method), [1] (WebinTokenResponse method), [1]

to_json() (MGnifyMetadata method) (ResultsHandler method) to_list() (MGnifyMetadata method) (ResultsHandler method) to_pandas() (DWCTaxaMGazine method) (MGazine method), [1] (MGnifyMetadata method) (MTG method), [1] (ResultsHandler method) (TaxaMGazine method) to_polars() (DWCTaxaMGazine method) (MGazine method), [1] (MGnifyMetadata method) (MTG method), [1] (ResultsHandler method) (TaxaMGazine method) to_tuple() (File method) TODO (MGnifier attribute), [1], [2] token (AuthenticatedClient attribute), [1], [2], [3], [4], [5] (TokenVerifyInputSchema attribute), [1], [2], [3] (WebinTokenRefreshRequest attribute), [1], [2], [3] (WebinTokenResponse attribute), [1], [2], [3] token_type (WebinTokenResponse attribute), [1], [2], [3] TokenVerifyInputSchema (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.token_verify_input_schema) translate() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1] tree (BiomeDetail property), [1] (Biomes property), [1], [2] (BiomesTreeMixin property) TREE (DownloadFileType attribute), [1] trnas (GenomeDetail attribute), [1], [2], [3] try_load_cache() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (BioSampler method), [1] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (CheckpointMixin method) (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnetizer method), [1] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1] TSV (DownloadFileType attribute), [1] type_ (EuropePmcAnnotationMention attribute), [1], [2], [3] (GenomeDetail attribute), [1], [2], [3] (GenomeList attribute), [1], [2], [3]

U

unclustered_genome_count (GenomeCatalogueBase attribute), [1], [2], [3] (GenomeCatalogueDetail attribute), [1], [2], [3] (GenomeCatalogueList attribute), [1], [2], [3] UnexpectedStatus UNKNO (ExperimentTypes attribute), [1] Unset (class in mgnipy.emgapi_v2_client.types) update_forward_refs() (MGnipyConfig class method) updated_at (AdditionalContainedGenomeSchema attribute), [1], [2], [3] (Assembly attribute), [1], [2], [3] (AssemblyDetail attribute), [1], [2], [3] (GenomeAssemblyLinkSchema attribute), [1], [2], [3] (GenomeCatalogueBase attribute), [1], [2], [3] (GenomeCatalogueDetail attribute), [1], [2], [3] (GenomeCatalogueList attribute), [1], [2], [3] (GenomeDetail attribute), [1], [2], [3] (GenomeList attribute), [1], [2], [3] UPDATED_AT (ListMgnifySamplesOrderType0 attribute), [1] (ListMgnifyStudiesOrderType0 attribute), [1] updated_at (MGnifySample attribute), [1], [2], [3] (MGnifySampleDetail attribute), [1], [2], [3] (MGnifySampleWithMetadata attribute), [1], [2], [3] (MGnifyStudy attribute), [1], [2], [3] (MGnifyStudyDetail attribute), [1], [2], [3] UPDATED_AT (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 attribute), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 attribute), [1] upper() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1]

uri (EuropePmcAnnotationTag attribute), [1], [2], [3] url (MGnifyAnalysisDownloadFile attribute), [1], [2], [3] (MGnifyDownloadFileIndexFile attribute), [1], [2], [3] (MGnifyGenomeCatalogueDownloadFile attribute), [1] (MGnifyGenomeDownloadFile attribute), [1], [2], [3] (MGnifyStudyDownloadFile attribute), [1], [2], [3] url_dict (DWCTaxaMGazine property) (MGazine attribute), [1] (MGazine property), [1] (TaxaMGazine property) url_list (DWCTaxaMGazine property) (MGazine attribute), [1] (MGazine property), [1] (TaxaMGazine property) url_path() (DescribeEmgapiModule method) urls (DWCTaxaMGazine property) (MGazine attribute), [1] (MGazine property), [1] (TaxaMGazine property) username (WebinTokenRequest attribute), [1], [2], [3]

V

V1 (PipelineVersions attribute), [1] V2 (PipelineVersions attribute), [1] V3 (PipelineVersions attribute), [1] V4 (PipelineVersions attribute), [1] V4_1 (PipelineVersions attribute), [1] V5 (PipelineVersions attribute), [1] V6 (PipelineVersions attribute), [1] V6_1 (PipelineVersions attribute), [1] validate() (MGnipyConfig class method) validate_endpoint_kwargs() (DescribeEmgapiModule method) VALUE_1 (GetGenomeCatalogueGenomesOrderType0 attribute), [1] (ListMgnifyGenomesOrderType0 attribute), [1] (ListMgnifyPublicationsOrderType0 attribute), [1] (ListMgnifySamplesOrderType0 attribute), [1] (ListMgnifyStudiesOrderType0 attribute), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 attribute), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 attribute), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 attribute), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 attribute), [1] VALUE_10 (GetGenomeCatalogueGenomesOrderType0 attribute), [1] (ListMgnifyGenomesOrderType0 attribute), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 attribute), [1] VALUE_2 (ListMgnifyPublicationsOrderType0 attribute), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 attribute), [1] VALUE_3 (GetGenomeCatalogueGenomesOrderType0 attribute), [1] (ListMgnifyGenomesOrderType0 attribute), [1] (ListMgnifySamplesOrderType0 attribute), [1] (ListMgnifyStudiesOrderType0 attribute), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 attribute), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 attribute), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 attribute), [1]

VALUE_4 (ListMgnifySamplesOrderType0 attribute), [1] (ListMgnifyStudiesOrderType0 attribute), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 attribute), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 attribute), [1] VALUE_5 (GetGenomeCatalogueGenomesOrderType0 attribute), [1] (ListMgnifyGenomesOrderType0 attribute), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 attribute), [1] VALUE_7 (GetGenomeCatalogueGenomesOrderType0 attribute), [1] (ListMgnifyGenomesOrderType0 attribute), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 attribute), [1] VALUE_9 (GetGenomeCatalogueGenomesOrderType0 attribute), [1] (ListMgnifyGenomesOrderType0 attribute), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 attribute), [1] var_metadata() (MTG method), [1] VARIETY (ENASampleFields attribute), [1] verify_auth_token() (MGnipyConfig method) version (GenomeCatalogueBase attribute), [1], [2], [3] (GenomeCatalogueDetail attribute), [1], [2], [3] (GenomeCatalogueList attribute), [1], [2], [3] VIRUSES (GenomeCatalogueBaseCatalogueType attribute), [1] (GenomeCatalogueDetailCatalogueType attribute), [1] (GenomeCatalogueListCatalogueType attribute), [1]

W

WebinTokenRefreshRequest (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.webin_token_refresh_request) WebinTokenRequest (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.webin_token_request) WebinTokenResponse (class in mgnipy.emgapi_v2_client.models) (class in mgnipy.emgapi_v2_client.models.webin_token_response) with_cookies() (AuthenticatedClient method), [1], [2] (Client method), [1], [2] with_headers() (AuthenticatedClient method), [1], [2] (Client method), [1], [2] with_timeout() (AuthenticatedClient method), [1], [2] (Client method), [1], [2] with_traceback() (UnexpectedStatus method) write_results() (Analyses method), [1], [2] (AnalysisDetail method), [1] (Assemblies method), [1], [2] (AssemblyDetail method), [1] (BiomeDetail method), [1] (Biomes method), [1], [2] (BioSampler method), [1] (CatalogueDetail method), [1] (Catalogues method), [1], [2] (CheckpointMixin method) (GenomeDetail method), [1] (Genomes method), [1], [2] (MGnetizer method), [1] (MGnifier method), [1], [2] (MGnifyDetail method) (MGnifyList method) (PrivateStudies method) (PublicationDetail method), [1] (Publications method), [1], [2] (RunDetail method), [1] (Runs method), [1], [2] (SampleDetail method), [1] (Samples method), [1], [2] (Studies method), [1], [2] (StudyDetail method), [1]

X

X (DWCTaxaMGazine attribute) (TaxaMGazine attribute)

X() (MTG method), [1] (TaxaMGazine method)

Z

zfill() (AnalysisGetMgnifyAnalysisWithAnnotationsOfTypeMGnifyFunctionalAnalysisAnnotationType method), [1] (DownloadFileIndexFileIndexType method), [1] (DownloadFileType method), [1] (DownloadType method), [1] (ENASampleFields method), [1] (ENAStudyFields method), [1] (ExperimentTypes method), [1] (GenomeCatalogueBaseCatalogueType method), [1] (GenomeCatalogueBaseStatus method), [1] (GenomeCatalogueDetailCatalogueType method), [1] (GenomeCatalogueDetailStatus method), [1] (GenomeCatalogueListCatalogueType method), [1] (GenomeCatalogueListStatus method), [1] (GenomeType method), [1] (GetGenomeCatalogueGenomesOrderType0 method), [1] (ListMgnifyGenomesOrderType0 method), [1] (ListMgnifyPublicationsOrderType0 method), [1] (ListMgnifySamplesOrderType0 method), [1] (ListMgnifyStudiesOrderType0 method), [1] (MGnifyDownloadFileIndexFileIndexType method), [1] (MGnifyFunctionalAnalysisAnnotationType method), [1] (OrderByFilterLiteralaccessionAccessionLengthLengthCompletenessCompletenessContaminationContaminationNumGenomesTotalNumGenomesTotalOrderType0 method), [1] (OrderByFilterLiteralaccessionAccessionUpdatedAtUpdatedAtOrderType0 method), [1] (OrderByFilterLiteralpublishedYearPublishedYearOrderType0 method), [1] (OrderByFilterLiteralsampleTitleSampleTitleUpdatedAtUpdatedAtOrderType0 method), [1] (PipelineVersions method), [1]