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td-sidebar-link__section tree-root" id=m-datasetsdocsv2><span>Documentation</span></a><ul class=ul-1><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child" id=m-datasetsdocsv2getting_started-li><a href=/datasets/docs/v2/getting_started/ class="align-left ps-0 td-sidebar-link
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td-sidebar-link__page" id=m-datasetsdocsv2getting_started><span>Getting started</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child" id=m-datasetsdocsv2command-line-tools-li><a href=/datasets/docs/v2/command-line-tools/ class="align-left ps-0 td-sidebar-link
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td-sidebar-link__section" id=m-datasetsdocsv2command-line-tools><span>Command line tools</span></a><ul class="ul-2 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2command-line-toolsdownload-and-install-li><a href=/datasets/docs/v2/command-line-tools/download-and-install/ title="Download and Install" class="align-left ps-0 td-sidebar-link
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td-sidebar-link__page" id=m-datasetsdocsv2command-line-toolsdownload-and-install><span>Download and install</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2command-line-toolsusing-dataformat-li><a href=/datasets/docs/v2/command-line-tools/using-dataformat/ class="align-left ps-0 td-sidebar-link
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td-sidebar-link__section" id=m-datasetsdocsv2command-line-toolsusing-dataformat><span>Using dataformat</span></a><ul class="ul-3 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2command-line-toolsusing-dataformatgene-data-reports-li><a href=/datasets/docs/v2/command-line-tools/using-dataformat/gene-data-reports/ title="Gene Data Reports" class="align-left ps-0 td-sidebar-link
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td-sidebar-link__page" id=m-datasetsdocsv2command-line-toolsusing-dataformatgene-data-reports><span>Gene data reports</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2command-line-toolsusing-dataformatgenome-data-reports-li><a href=/datasets/docs/v2/command-line-tools/using-dataformat/genome-data-reports/ title="Genome Data Reports" class="align-left ps-0 td-sidebar-link
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td-sidebar-link__page" id=m-datasetsdocsv2command-line-toolsusing-dataformatgenome-data-reports><span>Genome data reports</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2command-line-toolsusing-dataformatvirus-data-reports-li><a href=/datasets/docs/v2/command-line-tools/using-dataformat/virus-data-reports/ title="Virus Data Reports" class="align-left ps-0 td-sidebar-link
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td-sidebar-link__page" id=m-datasetsdocsv2command-line-toolsusing-dataformatvirus-data-reports><span>Virus data reports</span></a></li></ul></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child" id=m-datasetsdocsv2how-tos-li><a href=/datasets/docs/v2/how-tos/ class="align-left ps-0 td-sidebar-link
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td-sidebar-link__section" id=m-datasetsdocsv2how-tos><span>How-To Guides</span></a><ul class="ul-2 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2how-tosgenes-li><a href=/datasets/docs/v2/how-tos/genes/ class="align-left ps-0 td-sidebar-link
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td-sidebar-link__section" id=m-datasetsdocsv2how-tosgenes><span>Genes</span></a><ul class="ul-3 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2how-tosgenesget-gene-metadata-li><a href=/datasets/docs/v2/how-tos/genes/get-gene-metadata/ class="align-left ps-0 td-sidebar-link
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td-sidebar-link__page" id=m-datasetsdocsv2how-tosgenesget-gene-metadata><span>Get gene metadata</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2how-tosgenesdownload-gene-data-package-li><a href=/datasets/docs/v2/how-tos/genes/download-gene-data-package/ title="Download a gene data package" class="align-left ps-0 td-sidebar-link
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td-sidebar-link__page" id=m-datasetsdocsv2how-tosgenesdownload-gene-data-package><span>Download genes</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2how-tosgenesdownload-ortholog-data-package-li><a href=/datasets/docs/v2/how-tos/genes/download-ortholog-data-package/ title="Download an ortholog data package" class="align-left ps-0 td-sidebar-link
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td-sidebar-link__page" id=m-datasetsdocsv2how-tosgenesdownload-ortholog-data-package><span>Download orthologs</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2how-tosgenomes-li><a href=/datasets/docs/v2/how-tos/genomes/ class="align-left ps-0 td-sidebar-link
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td-sidebar-link__section" id=m-datasetsdocsv2how-tosgenomes><span>Genomes</span></a><ul class="ul-3 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2how-tosgenomesget-genome-metadata-li><a href=/datasets/docs/v2/how-tos/genomes/get-genome-metadata/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2how-tosgenomesget-genome-metadata><span>Get genome metadata</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2how-tosgenomesdownload-genome-li><a href=/datasets/docs/v2/how-tos/genomes/download-genome/ title="Download a genome data package" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2how-tosgenomesdownload-genome><span>Download genome data</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2how-tosgenomeslarge-download-li><a href=/datasets/docs/v2/how-tos/genomes/large-download/ title="Download large genome data packages" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2how-tosgenomeslarge-download><span>Large genome downloads</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2how-tostaxonomy-li><a href=/datasets/docs/v2/how-tos/taxonomy/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2how-tostaxonomy><span>Taxonomy</span></a><ul class="ul-3 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2how-tostaxonomytaxonomy-li><a href=/datasets/docs/v2/how-tos/taxonomy/taxonomy/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2how-tostaxonomytaxonomy><span>Get taxonomy metadata</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2how-tosvirus-li><a href=/datasets/docs/v2/how-tos/virus/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2how-tosvirus><span>Virus</span></a><ul class="ul-3 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2how-tosvirusinfluenza-metadata-li><a href=/datasets/docs/v2/how-tos/virus/influenza-metadata/ title="Get Alphainfluenza virus genome metadata" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2how-tosvirusinfluenza-metadata><span>Get Alphainfluenza virus metadata</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2how-tosvirusvirus-metadata-li><a href=/datasets/docs/v2/how-tos/virus/virus-metadata/ title="Get virus genome metadata" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2how-tosvirusvirus-metadata><span>Get virus metadata</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2how-tosvirusvirus-download-li><a href=/datasets/docs/v2/how-tos/virus/virus-download/ title="Download a virus genome data package" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2how-tosvirusvirus-download><span>Download virus genomes</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2how-tosvirusget-influenza-genomes-li><a href=/datasets/docs/v2/how-tos/virus/get-influenza-genomes/ title="Download an Alphainfluenza genome data package" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2how-tosvirusget-influenza-genomes><span>Download Alphainfluenza genomes</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2how-tosvirusget-sars2-genomes-li><a href=/datasets/docs/v2/how-tos/virus/get-sars2-genomes/ title="Download a SARS-CoV-2 genome data package" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2how-tosvirusget-sars2-genomes><span>Download SARS-CoV-2 genomes</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2how-tosvirusget-sars2-proteins-li><a href=/datasets/docs/v2/how-tos/virus/get-sars2-proteins/ title="Download a SARS-CoV-2 protein data package" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2how-tosvirusget-sars2-proteins><span>Download SARS-CoV-2 proteins</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2how-tosvalidation-li><a href=/datasets/docs/v2/how-tos/validation/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2how-tosvalidation><span>File validation</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child" id=m-datasetsdocsv2tutorials-li><a href=/datasets/docs/v2/tutorials/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2tutorials><span>Tutorials</span></a><ul class="ul-2 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2tutorialsortholog-get-one-isoform-li><a href=/datasets/docs/v2/tutorials/ortholog-get-one-isoform/ title="Get one protein per gene from a set of orthologs" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2tutorialsortholog-get-one-isoform><span>Get one protein from an ortholog set</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2tutorialsrename-files-li><a href=/datasets/docs/v2/tutorials/rename-files/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2tutorialsrename-files><span>Rename downloaded files</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2tutorialsdownload-ortholog-dataset-li><a href=/datasets/docs/v2/tutorials/download-ortholog-dataset/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2tutorialsdownload-ortholog-dataset><span>Retrieve ortholog data and metadata</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2tutorialsworking-with-jsonl-data-reports-li><a href=/datasets/docs/v2/tutorials/working-with-jsonl-data-reports/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2tutorialsworking-with-jsonl-data-reports><span>Working with JSON Lines data reports</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child" id=m-datasetsdocsv2api-li><a href=/datasets/docs/v2/api/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2api><span>API</span></a><ul class="ul-2 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2apirest-api-li><a href=/datasets/docs/v2/api/rest-api/ title="NCBI Datasets v2 REST API" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2apirest-api><span>REST API</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2apiapi-keys-li><a href=/datasets/docs/v2/api/api-keys/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2apiapi-keys><span>API keys</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2apilanguages-li><a href=/datasets/docs/v2/api/languages/ title="Supported programming languages" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2apilanguages><span>Programming Languages</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2apideprecated-apis-li><a href=/datasets/docs/v2/api/deprecated-apis/ title="Retired API Endpoints" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2apideprecated-apis><span>Retired Endpoints</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child" id=m-datasetsdocsv2policies-annotation-li><a href=/datasets/docs/v2/policies-annotation/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2policies-annotation><span>NCBI Genome Data Processing</span></a><ul class="ul-2 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2policies-annotationgenome-processing-li><a href=/datasets/docs/v2/policies-annotation/genome-processing/ title="NCBI Genome Data Processing" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2policies-annotationgenome-processing><span>Genome Data Processing</span></a><ul class="ul-3 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2policies-annotationgenome-processingversion-status-li><a href=/datasets/docs/v2/policies-annotation/genome-processing/version-status/ title="Assembly Versioning and Status" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2policies-annotationgenome-processingversion-status><span>Assembly version and status</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2policies-annotationgenome-processingreference-selection-li><a href=/datasets/docs/v2/policies-annotation/genome-processing/reference-selection/ title="Selecting Reference Genomes" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2policies-annotationgenome-processingreference-selection><span>Reference Genomes</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2policies-annotationgenome-processingrefseq-selection-li><a href=/datasets/docs/v2/policies-annotation/genome-processing/refseq-selection/ title="Genomes Selected for RefSeq Annotation" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2policies-annotationgenome-processingrefseq-selection><span>RefSeq Genomes</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2policies-annotationgenome-processinggenome_notes-li><a href=/datasets/docs/v2/policies-annotation/genome-processing/genome_notes/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2policies-annotationgenome-processinggenome_notes><span>Genome Notes</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2policies-annotationgenome-processingtype-material-li><a href=/datasets/docs/v2/policies-annotation/genome-processing/type-material/ title="What is Type Material?" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2policies-annotationgenome-processingtype-material><span>Type Material</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2policies-annotationpipelines-li><a href=/datasets/docs/v2/policies-annotation/pipelines/ title="NCBI RefSeq Genome Annotation Pipelines" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2policies-annotationpipelines><span>Genome Annotation Pipelines</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2policies-annotationquality-li><a href=/datasets/docs/v2/policies-annotation/quality/ title="NCBI Genome Quality Analysis" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2policies-annotationquality><span>Genome Quality Analysis</span></a><ul class="ul-3 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2policies-annotationqualitycontamination-li><a href=/datasets/docs/v2/policies-annotation/quality/contamination/ title="NCBI Contamination Screening" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2policies-annotationqualitycontamination><span>Contamination Screening</span></a><ul class="ul-4 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2policies-annotationqualitycontaminationfcs-contamination-li><a href=/datasets/docs/v2/policies-annotation/quality/contamination/fcs-contamination/ title="Foreign Contamination Screen (FCS)" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2policies-annotationqualitycontaminationfcs-contamination><span>FCS</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2policies-annotationqualitycontaminationani-contamination-li><a href=/datasets/docs/v2/policies-annotation/quality/contamination/ani-contamination/ title="Average Nucleotide Identity (ANI)" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2policies-annotationqualitycontaminationani-contamination><span>ANI</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2policies-annotationqualityani-li><a href=/datasets/docs/v2/policies-annotation/quality/ani/ title="Average Nucleotide Identity (ANI)" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2policies-annotationqualityani><span>ANI Overview</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2policies-annotationqualitybusco-li><a href=/datasets/docs/v2/policies-annotation/quality/busco/ title="Benchmarking Universal Single-Copy Orthologs (BUSCO) Analysis" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2policies-annotationqualitybusco><span>BUSCO</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2policies-annotationqualitycheckm-li><a href=/datasets/docs/v2/policies-annotation/quality/checkm/ title="CheckM Analysis" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2policies-annotationqualitycheckm><span>CheckM</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2policies-annotationdata-model-li><a href=/datasets/docs/v2/policies-annotation/data-model/ title="The NCBI Genome Assembly Data Model" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2policies-annotationdata-model><span>Data model</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2policies-annotationgenomeftp-li><a href=/datasets/docs/v2/policies-annotation/genomeftp/ title="NCBI Genomes FTP" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2policies-annotationgenomeftp><span>Genomes FTP</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2policies-annotationortholog-calculation-li><a href=/datasets/docs/v2/policies-annotation/ortholog-calculation/ title="How Are Orthologs Calculated?" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2policies-annotationortholog-calculation><span>Ortholog Calculation</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child" id=m-datasetsdocsv2troubleshooting-li><a href=/datasets/docs/v2/troubleshooting/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2troubleshooting><span>FAQs and troubleshooting</span></a><ul class="ul-2 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2troubleshootingfaq-li><a href=/datasets/docs/v2/troubleshooting/faq/ title=FAQs class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2troubleshootingfaq><span>Frequently asked Questions</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2troubleshootingmac-zip-bug-li><a href=/datasets/docs/v2/troubleshooting/mac-zip-bug/ title="Mac zip archive bugs" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2troubleshootingmac-zip-bug><span>Mac zip bugs</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child active-path" id=m-datasetsdocsv2reference-docs-li><a href=/datasets/docs/v2/reference-docs/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docs><span>Reference</span></a><ul class="ul-2 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child" id=m-datasetsdocsv2reference-docscommand-line-li><a href=/datasets/docs/v2/reference-docs/command-line/ title="Command line tool reference" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docscommand-line><span>Command line</span></a><ul class="ul-3 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformat-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docscommand-linedataformat><span>dataformat</span></a><ul class="ul-4 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformattsv-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/tsv/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docscommand-linedataformattsv><span>tsv</span></a><ul class="ul-5 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_genome-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/tsv/dataformat_tsv_genome/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_genome><span>genome</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_genome-seq-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/tsv/dataformat_tsv_genome-seq/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_genome-seq><span>genome-seq</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_gene-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/tsv/dataformat_tsv_gene/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_gene><span>gene</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_gene-product-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/tsv/dataformat_tsv_gene-product/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_gene-product><span>gene-product</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_virus-genome-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/tsv/dataformat_tsv_virus-genome/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_virus-genome><span>virus-genome</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_virus-annotation-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/tsv/dataformat_tsv_virus-annotation/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_virus-annotation><span>virus-annotation</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_microbigge-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/tsv/dataformat_tsv_microbigge/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_microbigge><span>microbigge</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_prok-gene-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/tsv/dataformat_tsv_prok-gene/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_prok-gene><span>prok-gene</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_prok-gene-location-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/tsv/dataformat_tsv_prok-gene-location/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_prok-gene-location><span>prok-gene-location</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_genome-annotations-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/tsv/dataformat_tsv_genome-annotations/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_genome-annotations><span>genome-annotations</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_taxonomy-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/tsv/dataformat_tsv_taxonomy/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_taxonomy><span>taxonomy</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_organelle-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/tsv/dataformat_tsv_organelle/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformattsvdataformat_tsv_organelle><span>organelle</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformatexcel-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/excel/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docscommand-linedataformatexcel><span>excel</span></a><ul class="ul-5 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_genome-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/excel/dataformat_excel_genome/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_genome><span>genome</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_genome-seq-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/excel/dataformat_excel_genome-seq/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_genome-seq><span>genome-seq</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_gene-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/excel/dataformat_excel_gene/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_gene><span>gene</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_gene-product-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/excel/dataformat_excel_gene-product/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_gene-product><span>gene-product</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_virus-genome-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/excel/dataformat_excel_virus-genome/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_virus-genome><span>virus-genome</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_virus-annotation-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/excel/dataformat_excel_virus-annotation/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_virus-annotation><span>virus-annotation</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_microbigge-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/excel/dataformat_excel_microbigge/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_microbigge><span>microbigge</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_prok-gene-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/excel/dataformat_excel_prok-gene/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_prok-gene><span>prok-gene</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_prok-gene-location-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/excel/dataformat_excel_prok-gene-location/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_prok-gene-location><span>prok-gene-location</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_genome-annotations-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/excel/dataformat_excel_genome-annotations/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_genome-annotations><span>genome-annotations</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_taxonomy-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/excel/dataformat_excel_taxonomy/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_taxonomy><span>taxonomy</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_organelle-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/excel/dataformat_excel_organelle/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformatexceldataformat_excel_organelle><span>organelle</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformatdataformat_catalog-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/dataformat_catalog/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformatdataformat_catalog><span>catalog</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformatcompletion-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/completion/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docscommand-linedataformatcompletion><span>completion</span></a><ul class="ul-5 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformatcompletiondataformat_completion_bash-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/completion/dataformat_completion_bash/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformatcompletiondataformat_completion_bash><span>bash</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformatcompletiondataformat_completion_zsh-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/completion/dataformat_completion_zsh/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformatcompletiondataformat_completion_zsh><span>zsh</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformatcompletiondataformat_completion_fish-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/completion/dataformat_completion_fish/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformatcompletiondataformat_completion_fish><span>fish</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformatcompletiondataformat_completion_powershell-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/completion/dataformat_completion_powershell/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformatcompletiondataformat_completion_powershell><span>powershell</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedataformatdataformat_version-li><a href=/datasets/docs/v2/reference-docs/command-line/dataformat/dataformat_version/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedataformatdataformat_version><span>version</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasets-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docscommand-linedatasets><span>datasets</span></a><ul class="ul-4 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetssummary-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/summary/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docscommand-linedatasetssummary><span>summary</span></a><ul class="ul-5 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetssummarygene-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/summary/gene/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docscommand-linedatasetssummarygene><span>gene</span></a><ul class="ul-6 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetssummarygenedatasets_summary_gene_gene-id-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/summary/gene/datasets_summary_gene_gene-id/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetssummarygenedatasets_summary_gene_gene-id><span>gene-id</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetssummarygenedatasets_summary_gene_symbol-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/summary/gene/datasets_summary_gene_symbol/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetssummarygenedatasets_summary_gene_symbol><span>symbol</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetssummarygenedatasets_summary_gene_accession-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/summary/gene/datasets_summary_gene_accession/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetssummarygenedatasets_summary_gene_accession><span>accession</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetssummarygenedatasets_summary_gene_taxon-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/summary/gene/datasets_summary_gene_taxon/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetssummarygenedatasets_summary_gene_taxon><span>taxon</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetssummarygenedatasets_summary_gene_locus-tag-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/summary/gene/datasets_summary_gene_locus-tag/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetssummarygenedatasets_summary_gene_locus-tag><span>locus-tag</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetssummarygenome-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/summary/genome/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docscommand-linedatasetssummarygenome><span>genome</span></a><ul class="ul-6 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetssummarygenomedatasets_summary_genome_accession-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/summary/genome/datasets_summary_genome_accession/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetssummarygenomedatasets_summary_genome_accession><span>accession</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetssummarygenomedatasets_summary_genome_taxon-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/summary/genome/datasets_summary_genome_taxon/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetssummarygenomedatasets_summary_genome_taxon><span>taxon</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetssummaryvirus-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/summary/virus/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docscommand-linedatasetssummaryvirus><span>virus</span></a><ul class="ul-6 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetssummaryvirusgenome-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/summary/virus/genome/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docscommand-linedatasetssummaryvirusgenome><span>genome</span></a><ul class="ul-7 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetssummaryvirusgenomedatasets_summary_virus_genome_taxon-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/summary/virus/genome/datasets_summary_virus_genome_taxon/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetssummaryvirusgenomedatasets_summary_virus_genome_taxon><span>taxon</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetssummaryvirusgenomedatasets_summary_virus_genome_accession-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/summary/virus/genome/datasets_summary_virus_genome_accession/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetssummaryvirusgenomedatasets_summary_virus_genome_accession><span>accession</span></a></li></ul></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetssummarytaxonomy-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/summary/taxonomy/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docscommand-linedatasetssummarytaxonomy><span>taxonomy</span></a><ul class="ul-6 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetssummarytaxonomydatasets_summary_taxonomy_taxon-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/summary/taxonomy/datasets_summary_taxonomy_taxon/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetssummarytaxonomydatasets_summary_taxonomy_taxon><span>taxon</span></a></li></ul></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownload-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/download/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownload><span>download</span></a><ul class="ul-5 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadgene-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/download/gene/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadgene><span>gene</span></a><ul class="ul-6 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadgenedatasets_download_gene_gene-id-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/download/gene/datasets_download_gene_gene-id/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadgenedatasets_download_gene_gene-id><span>gene-id</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadgenedatasets_download_gene_symbol-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/download/gene/datasets_download_gene_symbol/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadgenedatasets_download_gene_symbol><span>symbol</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadgenedatasets_download_gene_accession-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/download/gene/datasets_download_gene_accession/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadgenedatasets_download_gene_accession><span>accession</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadgenedatasets_download_gene_taxon-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/download/gene/datasets_download_gene_taxon/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadgenedatasets_download_gene_taxon><span>taxon</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadgenedatasets_download_gene_locus-tag-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/download/gene/datasets_download_gene_locus-tag/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadgenedatasets_download_gene_locus-tag><span>locus-tag</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadgenome-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/download/genome/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadgenome><span>genome</span></a><ul class="ul-6 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadgenomedatasets_download_genome_accession-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/download/genome/datasets_download_genome_accession/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadgenomedatasets_download_genome_accession><span>accession</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadgenomedatasets_download_genome_taxon-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/download/genome/datasets_download_genome_taxon/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadgenomedatasets_download_genome_taxon><span>taxon</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadtaxonomy-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/download/taxonomy/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadtaxonomy><span>taxonomy</span></a><ul class="ul-6 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadtaxonomydatasets_download_taxonomy_taxon-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/download/taxonomy/datasets_download_taxonomy_taxon/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadtaxonomydatasets_download_taxonomy_taxon><span>taxon</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadvirus-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/download/virus/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadvirus><span>virus</span></a><ul class="ul-6 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadvirusgenome-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/download/virus/genome/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadvirusgenome><span>genome</span></a><ul class="ul-7 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadvirusgenomedatasets_download_virus_genome_accession-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/download/virus/genome/datasets_download_virus_genome_accession/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadvirusgenomedatasets_download_virus_genome_accession><span>accession</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadvirusgenomedatasets_download_virus_genome_taxon-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/download/virus/genome/datasets_download_virus_genome_taxon/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadvirusgenomedatasets_download_virus_genome_taxon><span>taxon</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadvirusdatasets_download_virus_protein-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/download/virus/datasets_download_virus_protein/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetsdownloadvirusdatasets_download_virus_protein><span>protein</span></a></li></ul></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetsdatasets_rehydrate-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/datasets_rehydrate/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetsdatasets_rehydrate><span>rehydrate</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetscompletion-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/completion/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docscommand-linedatasetscompletion><span>completion</span></a><ul class="ul-5 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetscompletiondatasets_completion_bash-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/completion/datasets_completion_bash/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetscompletiondatasets_completion_bash><span>bash</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetscompletiondatasets_completion_zsh-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/completion/datasets_completion_zsh/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetscompletiondatasets_completion_zsh><span>zsh</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetscompletiondatasets_completion_fish-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/completion/datasets_completion_fish/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetscompletiondatasets_completion_fish><span>fish</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docscommand-linedatasetscompletiondatasets_completion_powershell-li><a href=/datasets/docs/v2/reference-docs/command-line/datasets/completion/datasets_completion_powershell/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docscommand-linedatasetscompletiondatasets_completion_powershell><span>powershell</span></a></li></ul></li></ul></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child" id=m-datasetsdocsv2reference-docsfile-formats-li><a href=/datasets/docs/v2/reference-docs/file-formats/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docsfile-formats><span>File formats</span></a><ul class="ul-3 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2reference-docsfile-formatsannotation-files-li><a href=/datasets/docs/v2/reference-docs/file-formats/annotation-files/ title="Annotation file formats" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docsfile-formatsannotation-files><span>Annotation files</span></a><ul class="ul-4 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docsfile-formatsannotation-filesabout-ncbi-gbff-li><a href=/datasets/docs/v2/reference-docs/file-formats/annotation-files/about-ncbi-gbff/ title="GBFF format" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docsfile-formatsannotation-filesabout-ncbi-gbff><span>GBFF</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docsfile-formatsannotation-filesabout-ncbi-gff3-li><a href=/datasets/docs/v2/reference-docs/file-formats/annotation-files/about-ncbi-gff3/ title="GFF3 format" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docsfile-formatsannotation-filesabout-ncbi-gff3><span>GFF3</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child collapse" id=m-datasetsdocsv2reference-docsfile-formatsmetadata-files-li><a href=/datasets/docs/v2/reference-docs/file-formats/metadata-files/ title="Metadata file formats" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docsfile-formatsmetadata-files><span>Metadata files</span></a><ul class="ul-4 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docsfile-formatsmetadata-filesabout-json-and-tabular-li><a href=/datasets/docs/v2/reference-docs/file-formats/metadata-files/about-json-and-tabular/ title="Summary of JSON, JSON Lines, and CSV/TSV tabular formats" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docsfile-formatsmetadata-filesabout-json-and-tabular><span>Summary of metadata file formats</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docsfile-formatsmetadata-fileswhy-jsonl-li><a href=/datasets/docs/v2/reference-docs/file-formats/metadata-files/why-jsonl/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docsfile-formatsmetadata-fileswhy-jsonl><span>Why JSON and JSON Lines</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docsfile-formatsmetadata-filestools-for-jsonl-li><a href=/datasets/docs/v2/reference-docs/file-formats/metadata-files/tools-for-jsonl/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docsfile-formatsmetadata-filestools-for-jsonl><span>Tools for JSON and JSON Lines</span></a></li></ul></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child" id=m-datasetsdocsv2reference-docsrelease-notes-li><a href=/datasets/docs/v2/reference-docs/release-notes/ title="NCBI Datasets release notes" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docsrelease-notes><span>Release notes</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child active-path" id=m-datasetsdocsv2reference-docsdata-reports-li><a href=/datasets/docs/v2/reference-docs/data-reports/ title="Data report schemas" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docsdata-reports><span>Report schemas</span></a><ul class="ul-3 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child" id=m-datasetsdocsv2reference-docsdata-reportsgene-li><a href=/datasets/docs/v2/reference-docs/data-reports/gene/ title="Gene report" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docsdata-reportsgene><span>Gene</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child" id=m-datasetsdocsv2reference-docsdata-reportsgene-product-li><a href=/datasets/docs/v2/reference-docs/data-reports/gene-product/ title="Gene product report" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docsdata-reportsgene-product><span>Gene product</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child" id=m-datasetsdocsv2reference-docsdata-reportsgenome-assembly-li><a href=/datasets/docs/v2/reference-docs/data-reports/genome-assembly/ title="Genome assembly report" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docsdata-reportsgenome-assembly><span>Genome assembly</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child" id=m-datasetsdocsv2reference-docsdata-reportsgenome-sequence-li><a href=/datasets/docs/v2/reference-docs/data-reports/genome-sequence/ title="Genome sequence report" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docsdata-reportsgenome-sequence><span>Genome sequence</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child" id=m-datasetsdocsv2reference-docsdata-reportsmicrobigge-li><a href=/datasets/docs/v2/reference-docs/data-reports/microbigge/ title="MicroBIGG-E report" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docsdata-reportsmicrobigge><span>MicroBIGG-E</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child" id=m-datasetsdocsv2reference-docsdata-reportsprokaryote-gene-li><a href=/datasets/docs/v2/reference-docs/data-reports/prokaryote-gene/ title="Prokaryote gene report" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docsdata-reportsprokaryote-gene><span>Prok. gene</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child" id=m-datasetsdocsv2reference-docsdata-reportsprokaryote-gene-location-li><a href=/datasets/docs/v2/reference-docs/data-reports/prokaryote-gene-location/ title="Prokaryote gene location report" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docsdata-reportsprokaryote-gene-location><span>Prok. gene location</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child active-path" id=m-datasetsdocsv2reference-docsdata-reportstaxonomy-li><a href=/datasets/docs/v2/reference-docs/data-reports/taxonomy/ title="Taxonomy report" class="align-left ps-0 active td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docsdata-reportstaxonomy><span class=td-sidebar-nav-active-item>Taxonomy</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child" id=m-datasetsdocsv2reference-docsdata-reportstaxonomy-names-li><a href=/datasets/docs/v2/reference-docs/data-reports/taxonomy-names/ title="Taxonomy names report" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docsdata-reportstaxonomy-names><span>Taxonomy names</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child" id=m-datasetsdocsv2reference-docsdata-reportsvirus-li><a href=/datasets/docs/v2/reference-docs/data-reports/virus/ title="Virus report" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docsdata-reportsvirus><span>Virus</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child" id=m-datasetsdocsv2reference-docsdata-reportsvirus-annotation-li><a href=/datasets/docs/v2/reference-docs/data-reports/virus-annotation/ title="Virus annotation report" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docsdata-reportsvirus-annotation><span>Virus annotation</span></a></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section with-child" id=m-datasetsdocsv2reference-docsdata-packages-li><a href=/datasets/docs/v2/reference-docs/data-packages/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__section" id=m-datasetsdocsv2reference-docsdata-packages><span>Data packages</span></a><ul class="ul-3 foldable"><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docsdata-packagesgene-package-li><a href=/datasets/docs/v2/reference-docs/data-packages/gene-package/ title="NCBI Datasets Gene Package" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docsdata-packagesgene-package><span>Gene package</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docsdata-packagesgenome-li><a href=/datasets/docs/v2/reference-docs/data-packages/genome/ title="NCBI Datasets Genome Package" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docsdata-packagesgenome><span>Genome package</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docsdata-packagestaxonomy-li><a href=/datasets/docs/v2/reference-docs/data-packages/taxonomy/ title="NCBI Datasets Taxonomy Package" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docsdata-packagestaxonomy><span>Taxonomy package</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" id=m-datasetsdocsv2reference-docsdata-packagesvirus-genome-li><a href=/datasets/docs/v2/reference-docs/data-packages/virus-genome/ title="NCBI Datasets Virus Data Package" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docsdata-packagesvirus-genome><span>Virus data package</span></a></li></ul></li></ul></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child" id=m-datasetsdocsv2glossary-li><a href=/datasets/docs/v2/glossary/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2glossary><span>Glossary</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child" id=m-datasetsdocsv2citing-datasets-li><a href=/datasets/docs/v2/citing-datasets/ class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2citing-datasets><span>Cite Us</span></a></li></ul></li></ul></nav><script src=/datasets/docs/v2/js/sidebar-tree.js></script><div id=doc-version-selector-container><div>Documentation version</div><select><option value=v1>CLI v13.x (API v1)</option><option value=v2>CLI v16+ (API v2)</option></select>
|
||
<a href=/datasets/docs/v2/troubleshooting/faq/#which-version-of-the-documentation-should-i-use>Learn more</a></div></div></div><div class="d-none d-xl-block col-xl-2 td-sidebar-toc d-print-none"><div class=td-toc><nav id=TableOfContents><ul><li><ul><li><a href=#sample-report>Sample report</a></li><li><a href=#ncbi-datasets-v2-reports-TaxonomyNode>TaxonomyNode Structure</a></li><li><a href=#ncbi-datasets-v2-reports-Classification>Classification Structure</a></li><li><a href=#ncbi-datasets-v2-reports-NameAndAuthority>NameAndAuthority Structure</a></li><li><a href=#ncbi-datasets-v2-reports-NameAndAuthority-Note>NameAndAuthority.Note Structure</a></li><li><a href=#ncbi-datasets-v2-reports-NameAndAuthority-Publication>NameAndAuthority.Publication Structure</a></li><li><a href=#ncbi-datasets-v2-reports-TaxData>TaxData Structure</a></li><li><a href=#ncbi-datasets-v2-reports-TaxonomyNode-CountByType>TaxonomyNode.CountByType Structure</a></li><li><a href=#ncbi-datasets-v2-reports-CollectionType>CollectionType Enumeration</a></li><li><a href=#ncbi-datasets-v2-reports-CountType>CountType Enumeration</a></li><li><a href=#ncbi-datasets-v2-reports-NameAndAuthority-NoteClassifier>NameAndAuthority.NoteClassifier Enumeration</a></li><li><a href=#ncbi-datasets-v2-reports-RankType>RankType Enumeration</a></li><li><a href=#scalar-value-types>Scalar Value Types</a></li></ul></li></ul></nav></div></div><main class="col-12 col-md-9 col-xl-8 pl-md-5" role=main><div id=possible-banner></div><nav aria-label=breadcrumb class=d-print-none><ol class="breadcrumb spb-1"><li class=breadcrumb-item><a href=/datasets/docs/v2/>Documentation</a></li><li class=breadcrumb-item><a href=/datasets/docs/v2/reference-docs/>Reference</a></li><li class=breadcrumb-item><a href=/datasets/docs/v2/reference-docs/data-reports/>Report schemas</a></li><li class="breadcrumb-item active" aria-current=page><a href=/datasets/docs/v2/reference-docs/data-reports/taxonomy/>Taxonomy</a></li></ol></nav><h1 class="mb-4 font-weight-bold">Taxonomy report</h1><p class="lead pb-2">General information about a taxonomic identifier</p><div class="d-xl-none td-toc td-toc--inline d-print-none"><a id=td-content__toc-link href=#td-content__toc data-toggle=collapse aria-controls=td-docs-toc aria-expanded=false aria-label="Toggle toc navigation"><span class=lead>Contents<i class="fas fa-chevron-right ml-2"></i></span></a><div id=td-content__toc class=collapse><nav id=TableOfContents><ul><li><ul><li><a href=#sample-report>Sample report</a></li><li><a href=#ncbi-datasets-v2-reports-TaxonomyNode>TaxonomyNode Structure</a></li><li><a href=#ncbi-datasets-v2-reports-Classification>Classification Structure</a></li><li><a href=#ncbi-datasets-v2-reports-NameAndAuthority>NameAndAuthority Structure</a></li><li><a href=#ncbi-datasets-v2-reports-NameAndAuthority-Note>NameAndAuthority.Note Structure</a></li><li><a href=#ncbi-datasets-v2-reports-NameAndAuthority-Publication>NameAndAuthority.Publication Structure</a></li><li><a href=#ncbi-datasets-v2-reports-TaxData>TaxData Structure</a></li><li><a href=#ncbi-datasets-v2-reports-TaxonomyNode-CountByType>TaxonomyNode.CountByType Structure</a></li><li><a href=#ncbi-datasets-v2-reports-CollectionType>CollectionType Enumeration</a></li><li><a href=#ncbi-datasets-v2-reports-CountType>CountType Enumeration</a></li><li><a href=#ncbi-datasets-v2-reports-NameAndAuthority-NoteClassifier>NameAndAuthority.NoteClassifier Enumeration</a></li><li><a href=#ncbi-datasets-v2-reports-RankType>RankType Enumeration</a></li><li><a href=#scalar-value-types>Scalar Value Types</a></li></ul></li></ul></nav></div><button id=td-content__toc-link-expanded href=#td-content__toc class="btn btn-small ml-1 my-2 py-0 px-3" data-toggle=collapse aria-controls=td-docs-toc aria-expanded=true aria-label="Toggle toc navigation"></button></div><style>.td-content table{border:1px solid #ccc}@media screen and (min-width:600px){.td-content table{display:table}}@media screen and (max-width:400px){.td-content table td{white-space:nowrap!important}}.td-content table th{white-space:nowrap}summary>h3{display:inline-block}</style><div class=td-content><h1>Taxonomy report</h1><div class=lead>General information about a taxonomic identifier</div><header class=article-meta></header><div class=dataset-filename-content><p>The downloaded taxonomy data package contains a taxonomy data report in
|
||
<a href=https://jsonlines.readthedocs.io/>JSON Lines</a>
|
||
format in the file:<br><br><em>ncbi_dataset/data/taxonomy_report.jsonl</em><br><br>Each line of the taxonomy data report file is a hierarchical <a href=https://www.json.org/json-en.html>JSON</a>
|
||
object that represents a single taxonomy record. The schema of the taxonomy record is defined in the tables below
|
||
where each row describes a single field in the report or a sub-structure, which is a collection of fields.
|
||
The outermost structure of the report is <em>TaxonomyNode</em>.</p><p>Table fields that include a <em>Table Field Mnemonic</em> can be used with the
|
||
<a href=/datasets/docs/v2/reference-docs/command-line/dataformat/>dataformat</a> command-line tool's <nobr><code>--fields</code></nobr> option.
|
||
Refer to the <a href=/datasets/docs/v2/reference-docs/command-line/dataformat/>dataformat</a> CLI tool reference to see how you can use this tool
|
||
to transform taxonomy data reports from JSON Lines to tabular formats.</p></div><details class=data-report-sample><summary><h3 id=sample-report>Sample report</h3></summary><div class=highlight><pre style=background-color:#f0f3f3;-moz-tab-size:4;-o-tab-size:4;tab-size:4><code class=language-json data-lang=json>{
|
||
<span style=color:#309;font-weight:700>"taxonomy"</span>: {
|
||
<span style=color:#309;font-weight:700>"taxId"</span>: <span style=color:#f60>9606</span>,
|
||
<span style=color:#309;font-weight:700>"rank"</span>: <span style=color:#c30>"SPECIES"</span>,
|
||
<span style=color:#309;font-weight:700>"currentScientificName"</span>: {
|
||
<span style=color:#309;font-weight:700>"name"</span>: <span style=color:#c30>"Homo sapiens"</span>,
|
||
<span style=color:#309;font-weight:700>"authority"</span>: <span style=color:#c30>"Linnaeus, 1758"</span>
|
||
},
|
||
<span style=color:#309;font-weight:700>"curatorCommonName"</span>: <span style=color:#c30>"human"</span>,
|
||
<span style=color:#309;font-weight:700>"groupName"</span>: <span style=color:#c30>"primates"</span>,
|
||
<span style=color:#309;font-weight:700>"classification"</span>: {
|
||
<span style=color:#309;font-weight:700>"superkingdom"</span>: {
|
||
<span style=color:#309;font-weight:700>"name"</span>: <span style=color:#c30>"Eukaryota"</span>,
|
||
<span style=color:#309;font-weight:700>"id"</span>: <span style=color:#f60>2759</span>
|
||
},
|
||
<span style=color:#309;font-weight:700>"kingdom"</span>: {
|
||
<span style=color:#309;font-weight:700>"name"</span>: <span style=color:#c30>"Metazoa"</span>,
|
||
<span style=color:#309;font-weight:700>"id"</span>: <span style=color:#f60>33208</span>
|
||
},
|
||
<span style=color:#309;font-weight:700>"phylum"</span>: {
|
||
<span style=color:#309;font-weight:700>"name"</span>: <span style=color:#c30>"Chordata"</span>,
|
||
<span style=color:#309;font-weight:700>"id"</span>: <span style=color:#f60>7711</span>
|
||
},
|
||
<span style=color:#309;font-weight:700>"class"</span>: {
|
||
<span style=color:#309;font-weight:700>"name"</span>: <span style=color:#c30>"Mammalia"</span>,
|
||
<span style=color:#309;font-weight:700>"id"</span>: <span style=color:#f60>40674</span>
|
||
},
|
||
<span style=color:#309;font-weight:700>"order"</span>: {
|
||
<span style=color:#309;font-weight:700>"name"</span>: <span style=color:#c30>"Primates"</span>,
|
||
<span style=color:#309;font-weight:700>"id"</span>: <span style=color:#f60>9443</span>
|
||
},
|
||
<span style=color:#309;font-weight:700>"family"</span>: {
|
||
<span style=color:#309;font-weight:700>"name"</span>: <span style=color:#c30>"Hominidae"</span>,
|
||
<span style=color:#309;font-weight:700>"id"</span>: <span style=color:#f60>9604</span>
|
||
},
|
||
<span style=color:#309;font-weight:700>"genus"</span>: {
|
||
<span style=color:#309;font-weight:700>"name"</span>: <span style=color:#c30>"Homo"</span>,
|
||
<span style=color:#309;font-weight:700>"id"</span>: <span style=color:#f60>9605</span>
|
||
},
|
||
<span style=color:#309;font-weight:700>"species"</span>: {
|
||
<span style=color:#309;font-weight:700>"name"</span>: <span style=color:#c30>"Homo sapiens"</span>,
|
||
<span style=color:#309;font-weight:700>"id"</span>: <span style=color:#f60>9606</span>
|
||
}
|
||
},
|
||
<span style=color:#309;font-weight:700>"parents"</span>: [
|
||
<span style=color:#f60>1</span>,
|
||
<span style=color:#f60>131567</span>,
|
||
<span style=color:#f60>2759</span>,
|
||
<span style=color:#f60>33154</span>,
|
||
<span style=color:#f60>33208</span>,
|
||
<span style=color:#f60>6072</span>,
|
||
<span style=color:#f60>33213</span>,
|
||
<span style=color:#f60>33511</span>,
|
||
<span style=color:#f60>7711</span>,
|
||
<span style=color:#f60>89593</span>,
|
||
<span style=color:#f60>7742</span>,
|
||
<span style=color:#f60>7776</span>,
|
||
<span style=color:#f60>117570</span>,
|
||
<span style=color:#f60>117571</span>,
|
||
<span style=color:#f60>8287</span>,
|
||
<span style=color:#f60>1338369</span>,
|
||
<span style=color:#f60>32523</span>,
|
||
<span style=color:#f60>32524</span>,
|
||
<span style=color:#f60>40674</span>,
|
||
<span style=color:#f60>32525</span>,
|
||
<span style=color:#f60>9347</span>,
|
||
<span style=color:#f60>1437010</span>,
|
||
<span style=color:#f60>314146</span>,
|
||
<span style=color:#f60>9443</span>,
|
||
<span style=color:#f60>376913</span>,
|
||
<span style=color:#f60>314293</span>,
|
||
<span style=color:#f60>9526</span>,
|
||
<span style=color:#f60>314295</span>,
|
||
<span style=color:#f60>9604</span>,
|
||
<span style=color:#f60>207598</span>,
|
||
<span style=color:#f60>9605</span>
|
||
],
|
||
<span style=color:#309;font-weight:700>"children"</span>: [
|
||
<span style=color:#f60>741158</span>,
|
||
<span style=color:#f60>63221</span>
|
||
],
|
||
<span style=color:#309;font-weight:700>"counts"</span>: [
|
||
{
|
||
<span style=color:#309;font-weight:700>"type"</span>: <span style=color:#c30>"COUNT_TYPE_ASSEMBLY"</span>,
|
||
<span style=color:#309;font-weight:700>"count"</span>: <span style=color:#f60>1832</span>
|
||
},
|
||
{
|
||
<span style=color:#309;font-weight:700>"type"</span>: <span style=color:#c30>"COUNT_TYPE_GENE"</span>,
|
||
<span style=color:#309;font-weight:700>"count"</span>: <span style=color:#f60>193502</span>
|
||
},
|
||
{
|
||
<span style=color:#309;font-weight:700>"type"</span>: <span style=color:#c30>"COUNT_TYPE_tRNA"</span>,
|
||
<span style=color:#309;font-weight:700>"count"</span>: <span style=color:#f60>701</span>
|
||
},
|
||
{
|
||
<span style=color:#309;font-weight:700>"type"</span>: <span style=color:#c30>"COUNT_TYPE_rRNA"</span>,
|
||
<span style=color:#309;font-weight:700>"count"</span>: <span style=color:#f60>785</span>
|
||
},
|
||
{
|
||
<span style=color:#309;font-weight:700>"type"</span>: <span style=color:#c30>"COUNT_TYPE_snRNA"</span>,
|
||
<span style=color:#309;font-weight:700>"count"</span>: <span style=color:#f60>166</span>
|
||
},
|
||
{
|
||
<span style=color:#309;font-weight:700>"type"</span>: <span style=color:#c30>"COUNT_TYPE_scRNA"</span>,
|
||
<span style=color:#309;font-weight:700>"count"</span>: <span style=color:#f60>4</span>
|
||
},
|
||
{
|
||
<span style=color:#309;font-weight:700>"type"</span>: <span style=color:#c30>"COUNT_TYPE_snoRNA"</span>,
|
||
<span style=color:#309;font-weight:700>"count"</span>: <span style=color:#f60>1201</span>
|
||
},
|
||
{
|
||
<span style=color:#309;font-weight:700>"type"</span>: <span style=color:#c30>"COUNT_TYPE_PROTEIN_CODING"</span>,
|
||
<span style=color:#309;font-weight:700>"count"</span>: <span style=color:#f60>20623</span>
|
||
},
|
||
{
|
||
<span style=color:#309;font-weight:700>"type"</span>: <span style=color:#c30>"COUNT_TYPE_ncRNA"</span>,
|
||
<span style=color:#309;font-weight:700>"count"</span>: <span style=color:#f60>22245</span>
|
||
},
|
||
{
|
||
<span style=color:#309;font-weight:700>"type"</span>: <span style=color:#c30>"COUNT_TYPE_BIOLOGICAL_REGION"</span>,
|
||
<span style=color:#309;font-weight:700>"count"</span>: <span style=color:#f60>128261</span>
|
||
},
|
||
{
|
||
<span style=color:#309;font-weight:700>"type"</span>: <span style=color:#c30>"COUNT_TYPE_OTHER"</span>,
|
||
<span style=color:#309;font-weight:700>"count"</span>: <span style=color:#f60>844</span>
|
||
}
|
||
],
|
||
<span style=color:#309;font-weight:700>"genomicMoltype"</span>: <span style=color:#c30>"dsDNA"</span>,
|
||
<span style=color:#309;font-weight:700>"currentScientificNameIsFormal"</span>: <span style=color:#069;font-weight:700>true</span>
|
||
},
|
||
<span style=color:#309;font-weight:700>"query"</span>: [
|
||
<span style=color:#c30>"9606"</span>
|
||
]
|
||
}</code></pre></div></details><h3 id=ncbi-datasets-v2-reports-TaxonomyNode>TaxonomyNode Structure</h3><table><thead><tr><th>Field</th><th>Table Field Mnemonic</th><th>Table Column Name</th><th>Type</th><th>Description</th><th>Examples</th></tr></thead><tbody><tr><td><code>taxId</code></td><td><em>coming soon</em></td><td><em>coming soon</em></td><td><a href=#uint32><code>uint32</code></a></td><td>NCBI Taxonomy identifier</td><td><code>9606</code><br></td></tr><tr><td><code>rank</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-RankType><code>RankType</code></a></td><td>The taxonomic rank of the taxonomic node.</td><td><code>kingdom</code><br></td></tr><tr><td><code>currentScientificName</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-NameAndAuthority><code>NameAndAuthority</code></a></td><td>The currently accepted name chosen out of all synonyms for the taxonomic node.</td><td><code>Wickerhamiella versatilis (Etchells & T.A. Bell) de Vega & Lachance, 2017</code><br></td></tr><tr><td><code>basionym</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-NameAndAuthority><code>NameAndAuthority</code></a></td><td>The originally described name, no longer in use. Attached to the type material and species description.</td><td><code>Brettanomyces versatilis Etchells & T.A. Bell, 1950</code><br></td></tr><tr><td><code>curatorCommonName</code></td><td><em>coming soon</em></td><td><em>coming soon</em></td><td><a href=#string><code>string</code></a></td><td>The canonical common name.</td><td><code>sweet orange</code><br></td></tr><tr><td><code>groupName</code></td><td><em>coming soon</em></td><td><em>coming soon</em></td><td><a href=#string><code>string</code></a></td><td>A common name describing large, well-known taxa.</td><td><code>even-toed ungulates</code><br></td></tr><tr><td><code>hasTypeMaterial</code></td><td><em>coming soon</em></td><td><em>coming soon</em></td><td><a href=#bool><code>bool</code></a></td><td>A boolean that indicates whether or not type material is available for the species.</td><td></td></tr><tr><td><code>classification</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-Classification><code>Classification</code></a></td><td>A subset of parent nodes including well-established ranks.</td><td></td></tr><tr><td><code>parents repeated</code></td><td><em>coming soon</em></td><td><em>coming soon</em></td><td><a href=#uint32><code>uint32</code></a></td><td>Taxids of all parents, ordered from most specific (immediate parent), to most general.</td><td></td></tr><tr><td><code>children repeated</code></td><td><em>coming soon</em></td><td><em>coming soon</em></td><td><a href=#uint32><code>uint32</code></a></td><td>Taxids of children.</td><td></td></tr><tr><td><code>counts repeated</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-TaxonomyNode-CountByType><code>TaxonomyNode.CountByType</code></a></td><td></td><td></td></tr><tr><td><code>genomicMoltype</code></td><td><em>coming soon</em></td><td><em>coming soon</em></td><td><a href=#string><code>string</code></a></td><td>Genomic molecule type (dsDNA, ssDNA, ssDNA(-), ssRNA)</td><td></td></tr><tr><td><code>currentScientificNameIsFormal</code></td><td><em>coming soon</em></td><td><em>coming soon</em></td><td><a href=#bool><code>bool</code></a></td><td>Specify if the current scientific name is considered ‘formal’ or not.</td><td></td></tr><tr><td><code>secondaryTaxIds repeated</code></td><td><em>coming soon</em></td><td><em>coming soon</em></td><td><a href=#uint32><code>uint32</code></a></td><td></td><td></td></tr></tbody></table><h3 id=ncbi-datasets-v2-reports-Classification>Classification Structure</h3><table><thead><tr><th>Field</th><th>Table Field Mnemonic</th><th>Table Column Name</th><th>Type</th><th>Description</th><th>Examples</th></tr></thead><tbody><tr><td><code>superkingdom</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-TaxData><code>TaxData</code></a></td><td></td><td></td></tr><tr><td><code>kingdom</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-TaxData><code>TaxData</code></a></td><td></td><td></td></tr><tr><td><code>phylum</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-TaxData><code>TaxData</code></a></td><td></td><td></td></tr><tr><td><code>class</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-TaxData><code>TaxData</code></a></td><td></td><td></td></tr><tr><td><code>order</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-TaxData><code>TaxData</code></a></td><td></td><td></td></tr><tr><td><code>family</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-TaxData><code>TaxData</code></a></td><td></td><td></td></tr><tr><td><code>genus</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-TaxData><code>TaxData</code></a></td><td></td><td></td></tr><tr><td><code>species</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-TaxData><code>TaxData</code></a></td><td></td><td></td></tr><tr><td><code>domain</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-TaxData><code>TaxData</code></a></td><td>NOTE: These are out of order</td><td></td></tr><tr><td><code>realm</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-TaxData><code>TaxData</code></a></td><td></td><td></td></tr></tbody></table><h3 id=ncbi-datasets-v2-reports-NameAndAuthority>NameAndAuthority Structure</h3><p>Name and authority object.</p><p>Contains information on the taxonomic node’s name, authority, publications,
|
||
basionym, synonyms, etc.</p><table><thead><tr><th>Field</th><th>Table Field Mnemonic</th><th>Table Column Name</th><th>Type</th><th>Description</th><th>Examples</th></tr></thead><tbody><tr><td><code>name</code></td><td><em>coming soon</em></td><td><em>coming soon</em></td><td><a href=#string><code>string</code></a></td><td>This could be the scientific name, common name, synonym, etc. depending on the context.</td><td></td></tr><tr><td><code>authority</code></td><td><em>coming soon</em></td><td><em>coming soon</em></td><td><a href=#string><code>string</code></a></td><td>The authority that this name was created by. The authority is typically representedby the author(s) name and the year in which it was published.</td><td></td></tr><tr><td><code>typeStrains repeated</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-TaxonomyTypeMaterial><code>TaxonomyTypeMaterial</code></a></td><td>Any type materials for this entry.</td><td></td></tr><tr><td><code>curatorSynonym</code></td><td><em>coming soon</em></td><td><em>coming soon</em></td><td><a href=#string><code>string</code></a></td><td>The primary synonym of the scientific name.</td><td><code>Leptosphaeria maculans</code><br></td></tr><tr><td><code>homotypicSynonyms repeated</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-NameAndAuthority><code>NameAndAuthority</code></a></td><td>(Taxonomy names report only) Names generated after the basionym (e.g. by moving it to a different genus), but sharing the same type. Usually these are the results of genus changes. Also known as objective synonym, nomenclatural synonym.</td><td><code>Candida versatilis (Etchells & T.A. Bell) S.A. Mey. & Yarrow, 1978</code><br></td></tr><tr><td><code>heterotypicSynonyms repeated</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-NameAndAuthority><code>NameAndAuthority</code></a></td><td>(Taxonomy names report only) List of heterotypic synonyms associated with this entry.</td><td></td></tr><tr><td><code>otherSynonyms repeated</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-NameAndAuthority><code>NameAndAuthority</code></a></td><td>List of other (not listed as heterotypic or homotypic) synonyms associated with this entry.</td><td></td></tr><tr><td><code>informalNames repeated</code></td><td><em>coming soon</em></td><td><em>coming soon</em></td><td><a href=#string><code>string</code></a></td><td>List of informal names for the entry.</td><td><code>cow, spider</code><br></td></tr><tr><td><code>basionym</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-NameAndAuthority><code>NameAndAuthority</code></a></td><td>The originally described name, no longer in use. Attached to the type material and species description.</td><td><code>Brettanomyces versatilis Etchells & T.A. Bell, 1950</code><br></td></tr><tr><td><code>publications repeated</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-NameAndAuthority-Publication><code>NameAndAuthority.Publication</code></a></td><td>Contains a list of publication objects related to this species.</td><td></td></tr><tr><td><code>notes repeated</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-NameAndAuthority-Note><code>NameAndAuthority.Note</code></a></td><td>Contains a list of note objects related to this species.</td><td></td></tr><tr><td><code>formal</code></td><td><em>coming soon</em></td><td><em>coming soon</em></td><td><a href=#bool><code>bool</code></a></td><td>Indicates whether the name is formal (i.e. compliant)</td><td></td></tr></tbody></table><h3 id=ncbi-datasets-v2-reports-NameAndAuthority-Note>NameAndAuthority.Note Structure</h3><p>Note object</p><p>Contains information related to this specific entry.</p><table><thead><tr><th>Field</th><th>Table Field Mnemonic</th><th>Table Column Name</th><th>Type</th><th>Description</th><th>Examples</th></tr></thead><tbody><tr><td><code>name</code></td><td><em>coming soon</em></td><td><em>coming soon</em></td><td><a href=#string><code>string</code></a></td><td>Name of the notation.</td><td></td></tr><tr><td><code>note</code></td><td><em>coming soon</em></td><td><em>coming soon</em></td><td><a href=#string><code>string</code></a></td><td>Note text.</td><td></td></tr><tr><td><code>noteClassifier</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-NameAndAuthority-NoteClassifier><code>NameAndAuthority.NoteClassifier</code></a></td><td>Note classification</td><td></td></tr></tbody></table><h3 id=ncbi-datasets-v2-reports-NameAndAuthority-Publication>NameAndAuthority.Publication Structure</h3><p>Publication object</p><p>Contains information about the publication such as the name and the citation.</p><table><thead><tr><th>Field</th><th>Table Field Mnemonic</th><th>Table Column Name</th><th>Type</th><th>Description</th><th>Examples</th></tr></thead><tbody><tr><td><code>name</code></td><td><em>coming soon</em></td><td><em>coming soon</em></td><td><a href=#string><code>string</code></a></td><td>Name of the publication (article, book, etc.).</td><td></td></tr><tr><td><code>citation</code></td><td><em>coming soon</em></td><td><em>coming soon</em></td><td><a href=#string><code>string</code></a></td><td>Citation to the publication.</td><td></td></tr></tbody></table><h3 id=ncbi-datasets-v2-reports-TaxData>TaxData Structure</h3><table><thead><tr><th>Field</th><th>Table Field Mnemonic</th><th>Table Column Name</th><th>Type</th><th>Description</th><th>Examples</th></tr></thead><tbody><tr><td><code>name</code></td><td><em>coming soon</em></td><td><em>coming soon</em></td><td><a href=#string><code>string</code></a></td><td>Taxonomic name</td><td></td></tr><tr><td><code>id</code></td><td><em>coming soon</em></td><td><em>coming soon</em></td><td><a href=#uint32><code>uint32</code></a></td><td>NCBI Taxonomy identifier</td><td></td></tr></tbody></table><h3 id=ncbi-datasets-v2-reports-TaxonomyNode-CountByType>TaxonomyNode.CountByType Structure</h3><p>Count of various attributes, summed up for above species ranks.</p><table><thead><tr><th>Field</th><th>Table Field Mnemonic</th><th>Table Column Name</th><th>Type</th><th>Description</th><th>Examples</th></tr></thead><tbody><tr><td><code>type</code></td><td></td><td></td><td><a href=#ncbi-datasets-v2-reports-CountType><code>CountType</code></a></td><td></td><td></td></tr><tr><td><code>count</code></td><td><em>coming soon</em></td><td><em>coming soon</em></td><td><a href=#uint32><code>uint32</code></a></td><td></td><td></td></tr></tbody></table><h3 id=ncbi-datasets-v2-reports-CollectionType>CollectionType Enumeration</h3><table><thead><tr><th>Name</th><th>Number</th><th>Description</th></tr></thead><tbody><tr><td><code>no_collection_type</code></td><td><code>0</code></td><td></td></tr><tr><td><code>collection_culture_collection</code></td><td><code>1</code></td><td></td></tr><tr><td><code>specimen_voucher</code></td><td><code>2</code></td><td></td></tr></tbody></table><h3 id=ncbi-datasets-v2-reports-CountType>CountType Enumeration</h3><table><thead><tr><th>Name</th><th>Number</th><th>Description</th></tr></thead><tbody><tr><td><code>COUNT_TYPE_UNSPECIFIED</code></td><td><code>0</code></td><td></td></tr><tr><td><code>COUNT_TYPE_ASSEMBLY</code></td><td><code>1</code></td><td></td></tr><tr><td><code>COUNT_TYPE_GENE</code></td><td><code>2</code></td><td></td></tr><tr><td><code>COUNT_TYPE_tRNA</code></td><td><code>3</code></td><td></td></tr><tr><td><code>COUNT_TYPE_rRNA</code></td><td><code>4</code></td><td></td></tr><tr><td><code>COUNT_TYPE_snRNA</code></td><td><code>5</code></td><td></td></tr><tr><td><code>COUNT_TYPE_scRNA</code></td><td><code>6</code></td><td></td></tr><tr><td><code>COUNT_TYPE_snoRNA</code></td><td><code>7</code></td><td></td></tr><tr><td><code>COUNT_TYPE_PROTEIN_CODING</code></td><td><code>8</code></td><td></td></tr><tr><td><code>COUNT_TYPE_PSEUDO</code></td><td><code>9</code></td><td></td></tr><tr><td><code>COUNT_TYPE_TRANSPOSON</code></td><td><code>10</code></td><td></td></tr><tr><td><code>COUNT_TYPE_miscRNA</code></td><td><code>11</code></td><td></td></tr><tr><td><code>COUNT_TYPE_ncRNA</code></td><td><code>12</code></td><td></td></tr><tr><td><code>COUNT_TYPE_BIOLOGICAL_REGION</code></td><td><code>13</code></td><td></td></tr><tr><td><code>COUNT_TYPE_OTHER</code></td><td><code>14</code></td><td></td></tr><tr><td><code>COUNT_TYPE_ORGANELLE</code></td><td><code>15</code></td><td></td></tr></tbody></table><h3 id=ncbi-datasets-v2-reports-NameAndAuthority-NoteClassifier>NameAndAuthority.NoteClassifier Enumeration</h3><p>Class of authority</p><p>If the authority has any special classification, such as having been effectively and
|
||
validly published or having
|
||
been included in an approved list.</p><table><thead><tr><th>Name</th><th>Number</th><th>Description</th></tr></thead><tbody><tr><td><code>no_authority_classifier</code></td><td><code>0</code></td><td>No specific classification.</td></tr><tr><td><code>effective_name</code></td><td><code>1</code></td><td>Has been effectively and validly published (i.e. in the “International Code of Nonemclature of Prokaryotes”).</td></tr><tr><td><code>nomen_approbbatum</code></td><td><code>2</code></td><td>Has been included in an approved list (such as the “Approved List of Bacterial Names”).</td></tr><tr><td><code>ictv_accepted</code></td><td><code>3</code></td><td>Has been ICTV accepted</td></tr></tbody></table><h3 id=ncbi-datasets-v2-reports-RankType>RankType Enumeration</h3><p>Rank level</p><table><thead><tr><th>Name</th><th>Number</th><th>Description</th></tr></thead><tbody><tr><td><code>NO_RANK</code></td><td><code>0</code></td><td></td></tr><tr><td><code>SUPERKINGDOM</code></td><td><code>1</code></td><td>(Deprecate once taxonomy changes over) [deprecated=true];</td></tr><tr><td><code>DOMAIN</code></td><td><code>450</code></td><td>Replaces SUPERKINGDOM</td></tr><tr><td><code>REALM</code></td><td><code>460</code></td><td></td></tr><tr><td><code>KINGDOM</code></td><td><code>2</code></td><td></td></tr><tr><td><code>SUBKINGDOM</code></td><td><code>3</code></td><td></td></tr><tr><td><code>SUPERPHYLUM</code></td><td><code>4</code></td><td></td></tr><tr><td><code>SUBPHYLUM</code></td><td><code>5</code></td><td></td></tr><tr><td><code>PHYLUM</code></td><td><code>6</code></td><td></td></tr><tr><td><code>CLADE</code></td><td><code>31</code></td><td></td></tr><tr><td><code>SUPERCLASS</code></td><td><code>7</code></td><td></td></tr><tr><td><code>CLASS</code></td><td><code>8</code></td><td></td></tr><tr><td><code>SUBCLASS</code></td><td><code>9</code></td><td></td></tr><tr><td><code>INFRACLASS</code></td><td><code>10</code></td><td></td></tr><tr><td><code>COHORT</code></td><td><code>11</code></td><td></td></tr><tr><td><code>SUBCOHORT</code></td><td><code>12</code></td><td></td></tr><tr><td><code>SUPERORDER</code></td><td><code>13</code></td><td></td></tr><tr><td><code>ORDER</code></td><td><code>14</code></td><td></td></tr><tr><td><code>SUBORDER</code></td><td><code>15</code></td><td></td></tr><tr><td><code>INFRAORDER</code></td><td><code>16</code></td><td></td></tr><tr><td><code>PARVORDER</code></td><td><code>17</code></td><td></td></tr><tr><td><code>SUPERFAMILY</code></td><td><code>18</code></td><td></td></tr><tr><td><code>FAMILY</code></td><td><code>19</code></td><td></td></tr><tr><td><code>SUBFAMILY</code></td><td><code>20</code></td><td></td></tr><tr><td><code>GENUS</code></td><td><code>21</code></td><td></td></tr><tr><td><code>SUBGENUS</code></td><td><code>22</code></td><td></td></tr><tr><td><code>SPECIES_GROUP</code></td><td><code>23</code></td><td></td></tr><tr><td><code>SPECIES_SUBGROUP</code></td><td><code>24</code></td><td></td></tr><tr><td><code>SPECIES</code></td><td><code>25</code></td><td></td></tr><tr><td><code>SUBSPECIES</code></td><td><code>26</code></td><td></td></tr><tr><td><code>TRIBE</code></td><td><code>27</code></td><td></td></tr><tr><td><code>SUBTRIBE</code></td><td><code>28</code></td><td></td></tr><tr><td><code>FORMA</code></td><td><code>29</code></td><td></td></tr><tr><td><code>VARIETAS</code></td><td><code>30</code></td><td></td></tr><tr><td><code>STRAIN</code></td><td><code>320</code></td><td></td></tr><tr><td><code>SECTION</code></td><td><code>330</code></td><td></td></tr><tr><td><code>SUBSECTION</code></td><td><code>340</code></td><td></td></tr><tr><td><code>PATHOGROUP</code></td><td><code>350</code></td><td></td></tr><tr><td><code>SUBVARIETY</code></td><td><code>360</code></td><td></td></tr><tr><td><code>GENOTYPE</code></td><td><code>370</code></td><td></td></tr><tr><td><code>SEROTYPE</code></td><td><code>380</code></td><td></td></tr><tr><td><code>ISOLATE</code></td><td><code>390</code></td><td></td></tr><tr><td><code>MORPH</code></td><td><code>400</code></td><td></td></tr><tr><td><code>SERIES</code></td><td><code>410</code></td><td></td></tr><tr><td><code>FORMA_SPECIALIS</code></td><td><code>420</code></td><td></td></tr><tr><td><code>SEROGROUP</code></td><td><code>430</code></td><td></td></tr><tr><td><code>BIOTYPE</code></td><td><code>440</code></td><td></td></tr></tbody></table><h3 id=scalar-value-types>Scalar Value Types</h3><table><thead><tr><th>Protocol buffers type</th><th>Notes</th><th>C++</th><th>Python</th><th>Java</th><th>Go</th></tr></thead><tbody><tr><td><a name=double><code>double</code></td><td></td><td><code>double</code></td><td><code>float</code></td><td><code>double</code></td><td><code>float64</code></td></tr><tr><td><a name=float><code>float</code></td><td></td><td><code>float</code></td><td><code>float</code></td><td><code>float</code></td><td><code>float32</code></td></tr><tr><td><a name=int32><code>int32</code></td><td>Uses variable-length encoding. Inefficient for encoding negative numbers – if your field is likely to have negative values, use sint32 instead.</td><td><code>int32</code></td><td><code>int</code></td><td><code>int</code></td><td><code>int32</code></td></tr><tr><td><a name=int64><code>int64</code></td><td>Uses variable-length encoding. Inefficient for encoding negative numbers – if your field is likely to have negative values, use sint64 instead.</td><td><code>int64</code></td><td><code>int/long</code></td><td><code>long</code></td><td><code>int64</code></td></tr><tr><td><a name=uint32><code>uint32</code></td><td>Uses variable-length encoding.</td><td><code>uint32</code></td><td><code>int/long</code></td><td><code>int</code></td><td><code>uint32</code></td></tr><tr><td><a name=uint64><code>uint64</code></td><td>Uses variable-length encoding.</td><td><code>uint64</code></td><td><code>int/long</code></td><td><code>long</code></td><td><code>uint64</code></td></tr><tr><td><a name=sint32><code>sint32</code></td><td>Uses variable-length encoding. Signed int value. These more efficiently encode negative numbers than regular int32s.</td><td><code>int32</code></td><td><code>int</code></td><td><code>int</code></td><td><code>int32</code></td></tr><tr><td><a name=sint64><code>sint64</code></td><td>Uses variable-length encoding. Signed int value. These more efficiently encode negative numbers than regular int64s.</td><td><code>int64</code></td><td><code>int/long</code></td><td><code>long</code></td><td><code>int64</code></td></tr><tr><td><a name=fixed32><code>fixed32</code></td><td>Always four bytes. More efficient than uint32 if values are often greater than 2^28.</td><td><code>uint32</code></td><td><code>int</code></td><td><code>int</code></td><td><code>uint32</code></td></tr><tr><td><a name=fixed64><code>fixed64</code></td><td>Always eight bytes. More efficient than uint64 if values are often greater than 2^56.</td><td><code>uint64</code></td><td><code>int/long</code></td><td><code>long</code></td><td><code>uint64</code></td></tr><tr><td><a name=sfixed32><code>sfixed32</code></td><td>Always four bytes.</td><td><code>int32</code></td><td><code>int</code></td><td><code>int</code></td><td><code>int32</code></td></tr><tr><td><a name=sfixed64><code>sfixed64</code></td><td>Always eight bytes.</td><td><code>int64</code></td><td><code>int/long</code></td><td><code>long</code></td><td><code>int64</code></td></tr><tr><td><a name=bool><code>bool</code></td><td></td><td><code>bool</code></td><td><code>boolean</code></td><td><code>boolean</code></td><td><code>bool</code></td></tr><tr><td><a name=string><code>string</code></td><td>A string must always contain UTF-8 encoded or 7-bit ASCII text.</td><td><code>string</code></td><td><code>str/unicode</code></td><td><code>String</code></td><td><code>string</code></td></tr><tr><td><a 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