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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="Create a table from the 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="Create a table from the 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="Create a table from the 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-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-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-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" 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 collapse" 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 collapse" 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 collapse" 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 collapse" 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 collapse" 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 collapse" 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 collapse" 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 collapse" 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 collapse" 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 collapse" 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 collapse" 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 collapse" id=m-datasetsdocsv2reference-docsdata-reportstaxonomy-li><a href=/datasets/docs/v2/reference-docs/data-reports/taxonomy/ title="Taxonomy report" class="align-left ps-0 td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2reference-docsdata-reportstaxonomy><span>Taxonomy</span></a></li><li class="td-sidebar-nav__section-title td-sidebar-nav__section without-child collapse" 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 collapse" 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 collapse" 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 collapse" 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 active-path" id=m-datasetsdocsv2glossary-li><a href=/datasets/docs/v2/glossary/ class="align-left ps-0 active td-sidebar-link
|
||
td-sidebar-link__page" id=m-datasetsdocsv2glossary><span class=td-sidebar-nav-active-item>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=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><ul><li><a href=#alternate-locus>Alternate locus</a></li><li><a href=#alternate-locus-group>Alternate locus group</a></li><li><a href=#assembly>Assembly</a></li><li><a href=#assembly-anomaly>Assembly anomaly</a></li><li><a href=#assembly-level>Assembly level</a><ul><li><a href=#complete-genome>Complete genome</a></li><li><a href=#chromosome>Chromosome</a></li><li><a href=#scaffold>Scaffold</a></li><li><a href=#contig>Contig</a></li></ul></li><li><a href=#assembly-name>Assembly name</a></li><li><a href=#assembly-type>Assembly type</a><ul><li><a href=#diploid-assembly>Diploid assembly</a></li><li><a href=#haploid-assembly-default-assembly-type>Haploid assembly (default assembly type)</a></li><li><a href=#haploid-with-alt-loci>Haploid-with-alt-loci</a></li><li><a href=#linked-pseudohaplotype-assemblies>Linked pseudohaplotype assemblies</a></li><li><a href=#unresolved-diploid>Unresolved diploid</a></li></ul></li><li><a href=#atypical-genomes>Atypical genomes</a></li><li><a href=#average-nucleotide-identity-ani>Average Nucleotide Identity (ANI)</a></li><li><a href=#chromosome-context>Chromosome context</a></li><li><a href=#full-genome>Full Genome</a></li><li><a href=#genbank-assembly-accession>GenBank assembly accession</a></li><li><a href=#genome-patches>Genome patches</a><ul><li><a href=#fix-patches>Fix patches</a></li><li><a href=#novel-patches>Novel patches</a></li></ul></li><li><a href=#linked-assembly>Linked assembly</a></li><li><a href=#modifier>Modifier</a></li><li><a href=#par>PAR</a></li><li><a href=#partial-genome>Partial Genome</a></li><li><a href=#placed-sequence>Placed sequence</a></li><li><a href=#refseq-assembly-accession>RefSeq assembly accession</a></li><li><a href=#reference-genome>Reference genome</a></li><li><a href=#regions>Regions</a></li><li><a href=#relation-to-type-material>Relation to type material</a><ul><li><a href=#assembly-designated-as-clade-exemplar>Assembly designated as clade exemplar</a></li><li><a href=#assembly-designated-as-neotype>Assembly designated as neotype</a></li><li><a href=#assembly-designated-as-reftype>Assembly designated as reftype</a></li><li><a href=#assembly-from-pathotype-material>Assembly from pathotype material</a></li><li><a href=#assembly-from-synonym-type-material>Assembly from synonym type material</a></li><li><a href=#assembly-from-type-material>Assembly from type material</a></li><li><a href=#ictv-additional-isolate>ICTV additional isolate</a></li><li><a href=#ictv-species-exemplar>ICTV species exemplar</a></li></ul></li><li><a href=#release-type>Release type</a><ul><li><a href=#major>Major</a></li><li><a href=#minor>Minor</a></li><li><a href=#patch>Patch</a></li></ul></li><li><a href=#status>Status</a></li><li><a href=#unlocalized-sequence>Unlocalized sequence</a></li><li><a href=#unplaced-sequence>Unplaced sequence</a></li></ul></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 active" aria-current=page><a href=/datasets/docs/v2/glossary/>Glossary</a></li></ol></nav><h1 class="mb-4 font-weight-bold">Glossary</h1><p class="lead pb-2">Glossary of terms used in Datasets</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><ul><li><a href=#alternate-locus>Alternate locus</a></li><li><a href=#alternate-locus-group>Alternate locus group</a></li><li><a href=#assembly>Assembly</a></li><li><a href=#assembly-anomaly>Assembly anomaly</a></li><li><a href=#assembly-level>Assembly level</a><ul><li><a href=#complete-genome>Complete genome</a></li><li><a href=#chromosome>Chromosome</a></li><li><a href=#scaffold>Scaffold</a></li><li><a href=#contig>Contig</a></li></ul></li><li><a href=#assembly-name>Assembly name</a></li><li><a href=#assembly-type>Assembly type</a><ul><li><a href=#diploid-assembly>Diploid assembly</a></li><li><a href=#haploid-assembly-default-assembly-type>Haploid assembly (default assembly type)</a></li><li><a href=#haploid-with-alt-loci>Haploid-with-alt-loci</a></li><li><a href=#linked-pseudohaplotype-assemblies>Linked pseudohaplotype assemblies</a></li><li><a href=#unresolved-diploid>Unresolved diploid</a></li></ul></li><li><a href=#atypical-genomes>Atypical genomes</a></li><li><a href=#average-nucleotide-identity-ani>Average Nucleotide Identity (ANI)</a></li><li><a href=#chromosome-context>Chromosome context</a></li><li><a href=#full-genome>Full Genome</a></li><li><a href=#genbank-assembly-accession>GenBank assembly accession</a></li><li><a href=#genome-patches>Genome patches</a><ul><li><a href=#fix-patches>Fix patches</a></li><li><a href=#novel-patches>Novel patches</a></li></ul></li><li><a href=#linked-assembly>Linked assembly</a></li><li><a href=#modifier>Modifier</a></li><li><a href=#par>PAR</a></li><li><a href=#partial-genome>Partial Genome</a></li><li><a href=#placed-sequence>Placed sequence</a></li><li><a href=#refseq-assembly-accession>RefSeq assembly accession</a></li><li><a href=#reference-genome>Reference genome</a></li><li><a href=#regions>Regions</a></li><li><a href=#relation-to-type-material>Relation to type material</a><ul><li><a href=#assembly-designated-as-clade-exemplar>Assembly designated as clade exemplar</a></li><li><a href=#assembly-designated-as-neotype>Assembly designated as neotype</a></li><li><a href=#assembly-designated-as-reftype>Assembly designated as reftype</a></li><li><a href=#assembly-from-pathotype-material>Assembly from pathotype material</a></li><li><a href=#assembly-from-synonym-type-material>Assembly from synonym type material</a></li><li><a href=#assembly-from-type-material>Assembly from type material</a></li><li><a href=#ictv-additional-isolate>ICTV additional isolate</a></li><li><a href=#ictv-species-exemplar>ICTV species exemplar</a></li></ul></li><li><a href=#release-type>Release type</a><ul><li><a href=#major>Major</a></li><li><a href=#minor>Minor</a></li><li><a href=#patch>Patch</a></li></ul></li><li><a href=#status>Status</a></li><li><a href=#unlocalized-sequence>Unlocalized sequence</a></li><li><a href=#unplaced-sequence>Unplaced sequence</a></li></ul></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>Glossary</h1><div class=lead>Glossary of terms used in Datasets</div><header class=article-meta></header><h4 id=alternate-locus>Alternate locus</h4><p>A specific sequence that represents a different
|
||
version or variation of a particular locus present in the haploid
|
||
assembly, also known as the primary assembly. It serves as an
|
||
alternative representation of the genetic information found at that
|
||
specific location in the genome.</p><h4 id=alternate-locus-group>Alternate locus group</h4><p>A set of alternate loci grouped together for
|
||
annotation purposes. This may be because they are from the same
|
||
haplotype or strain or for annotation convenience.</p><h4 id=assembly>Assembly</h4><p>An assembly or assembled genome is the set of chromosomes, unlocalized and unplaced
|
||
(sometimes called “random”) and alternate sequences used to represent an
|
||
organism’s genome. The NCBI <a href=/datasets/docs/v2/policies-annotation/data-model/>Assembly Data Model</a>
|
||
defines assemblies as comprising one or more assembly units.</p><h4 id=assembly-anomaly>Assembly anomaly</h4><p>See atypical genomes (below).</p><h4 id=assembly-level>Assembly level</h4><p>The highest assembly level for any object in the
|
||
assembly. The values are as follows:</p><ul><li><h5 id=complete-genome>Complete genome</h5><p>All chromosomes are gapless and contain runs of nine or less ambiguous bases (Ns), there are no unplaced or unlocalized scaffolds, and all the expected chromosomes are present (i.e., the assembly is not noted as having <a href=#partial-genome>partial genome</a>
|
||
representation). Plasmids and organelles may or may not be included in the assembly, but if they are present, the sequences are gapless. The chromosome sequences may not be fully complete from telomere-to-telomere (T2T).</p></li><li><h5 id=chromosome>Chromosome</h5><p>There is sequence for one or more chromosomes. This may be a completely sequenced chromosome without gaps or a chromosome containing spans with gaps between them. There may also be unplaced or unlocalized sequences.</p></li><li><h5 id=scaffold>Scaffold</h5><p>One or more contigs are connected across gaps of 10 or more bases to create scaffolds. All sequences are unplaced or unlocalized.</p></li><li><h5 id=contig>Contig</h5><p>All sequences do not contain gaps. All sequences are unplaced or unlocalized. Includes ultra-contig assemblies based on long read sequencing with no gaps.</p></li></ul><h4 id=assembly-name>Assembly name</h4><p>The submitter’s name for the assembly when one is
|
||
provided, otherwise, a default name is provided by NCBI.</p><h4 id=assembly-type>Assembly type</h4><p>The possible assembly types are as follows:</p><ul><li><h5 id=diploid-assembly>Diploid assembly</h5><p>A genome assembly for which a chromosome
|
||
assembly is available for both sets of an individual’s chromosomes.
|
||
A diploid genome assembly is expected to represent the genome of an
|
||
individual. Therefore, alternate loci are not expected to be defined
|
||
for this assembly, though it is possible that unlocalized or
|
||
unplaced sequences may be part of the assembly.</p></li><li><h5 id=haploid-assembly-default-assembly-type>Haploid assembly (default assembly type)</h5><p>The collection of
|
||
chromosome assemblies, unlocalized and unplaced sequences
|
||
representing an organism’s genome. Any locus may be represented zero
|
||
or one time, and entire chromosomes are only represented zero or one
|
||
time.</p></li><li><h5 id=haploid-with-alt-loci>Haploid-with-alt-loci</h5><p>The collection of chromosome assemblies,
|
||
unlocalized and unplaced sequences, and alternate loci representing
|
||
an organism’s genome. Any locus may be represented zero, one, or
|
||
greater than one time, but entire chromosomes are only represented
|
||
zero or one time.</p></li><li><h5 id=linked-pseudohaplotype-assemblies>Linked pseudohaplotype assemblies</h5><p>A genome assembly from a diploid in which many of the haplotypic sequences have been resolved and phased, and the two haplotypes have been separated. A pair of pseudohaplotype assemblies derived from the same diploid individual can be linked with a cross-reference.</p></li><li><h5 id=unresolved-diploid>Unresolved diploid</h5><p>A genome assembly from a diploid in which
|
||
many haplotypic sequences have been resolved, but the two haplotypes
|
||
have not been separated. Consequently, the assembly will be much
|
||
larger than the expected haploid genome size, and two copies of many
|
||
genes will be present.</p></li></ul><h4 id=atypical-genomes>Atypical genomes</h4><p>Atypical genomes are genomes with one or more
|
||
problems identified by NCBI relating to quality, unusual size, or other
|
||
flaws in the genome assembly. For a full list of problems and definitions that result in this designation, see <a href=/datasets/docs/v2/policies-annotation/genome-processing/genome_notes/>Genome Notes</a>
|
||
.</p><h4 id=average-nucleotide-identity-ani>Average Nucleotide Identity (ANI)</h4><p>The Average Nucleotide Identity
|
||
(ANI) is a measure of genomic similarity at
|
||
the nucleotide level between two different genomes. The NCBI utilizes
|
||
ANI to evaluate the taxonomic identity of genome assemblies, primarily for prokaryotes and some eukaryotes such as fungi, that are submitted to GenBank (see NCBI Datasets <a href=/datasets/docs/v2/policies-annotation/quality/ani/>Average Nucleotide Identity</a>
|
||
documentation).</p><h4 id=chromosome-context>Chromosome context</h4><p>A term used to describe alternate loci and patches that have been aligned to the chromosome sequences defined in the Primary Assembly. While these sequences cannot strictly be expressed as chromosome coordinates, they can be related to the chromosome sequence via their alignment to the chromosome.</p><h4 id=full-genome>Full Genome</h4><p>The data used to generate the assembly was obtained
|
||
from the whole genome, e.g., Whole Genome Shotgun (WGS) assemblies. The
|
||
assembly may still contain gaps.</p><h4 id=genbank-assembly-accession>GenBank assembly accession</h4><p>The accession and version for the GenBank assembly (“accession.version”).</p><h4 id=genome-patches>Genome patches</h4><p>Sequence updates released outside the major
|
||
assembly cycle. These are instantiated as independent scaffolds aligned
|
||
to the primary assembly to provide chromosome context. There are two
|
||
types of patches:</p><ul><li><h5 id=fix-patches>Fix patches</h5><p>These patches correct assembly errors, and the scaffolds are withdrawn in the next major assembly update. Their accessions will be made secondary to the chromosome and their sequences incorporated into the primary assembly.</p></li><li><h5 id=novel-patches>Novel patches</h5><p>These represent new alternate loci. These
|
||
sequences will be moved to the appropriate assembly unit at the next
|
||
major assembly update, and the accession will remain stable.</p></li></ul><h4 id=linked-assembly>Linked assembly</h4><p>The “accession.version” and designation (principal
|
||
or alternate pseudohaplotype) of a paired genome assembly derived from
|
||
the same diploid individual (see “Assembly type” definitions above).</p><h4 id=modifier>Modifier</h4><p>Infraspecific or subspecies name or description.</p><h4 id=par>PAR</h4><p>Pseudo-autosomal region. A region found on the X and Y chromosomes of mammals that allows recombination between the sex chromosomes.</p><h4 id=partial-genome>Partial Genome</h4><p>The data used to generate the assembly came from
|
||
only part of the genome. The reasons genome representation is set to
|
||
partial include:</p><ul><li><p>The assembly description indicates that the assembly was targeted to
|
||
a single chromosome or a subset of the genome.</p></li><li><p>The chromosome set in the assembly is less than the expected chromosome complement for the organism, ignoring any plasmids, organelle chromosomes, and the sex chromosomes (X and/or Y for mammals, W and/or Z for birds).</p></li><li><p>The genome coverage in a WGS assembly is less than one.</p></li><li><p>The ungapped sequence length of the assembly is less than half the
|
||
average for other assemblies from the same species.</p></li></ul><h4 id=placed-sequence>Placed sequence</h4><p>Sequence that has been ordered and oriented on the chromosome. The locations of these sequences can usually be expressed in chromosome coordinates.</p><h4 id=refseq-assembly-accession>RefSeq assembly accession</h4><p>The accession and version for the RefSeq
|
||
version of the assembly (“accession.version”).</p><h4 id=reference-genome>Reference genome</h4><p>A genome assembly that NCBI has identified as the “best” for the species. Criteria for choosing and maintaining
|
||
reference genomes are described in <a href=/datasets/docs/v2/policies-annotation/genome-processing/reference-selection/>Selecting Reference Genomes.</a></p><h4 id=regions>Regions</h4><p>Locations on the primary assembly (typically on the
|
||
chromosome sequences) for which alternate representations or genome
|
||
patches exist.</p><h4 id=relation-to-type-material>Relation to type material</h4><p>Shown if the sequences in the genome
|
||
assembly were derived from type material, synonym type material, or
|
||
other type material (for more information, see <a href=/datasets/docs/v2/policies-annotation/genome-processing/type-material/>What is type material?</a>
|
||
and <a href=https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4383940/ target=_blank>Federhen
|
||
2015</a>
|
||
):</p><ul><li><h5 id=assembly-designated-as-clade-exemplar>Assembly designated as clade exemplar</h5><p>The genome assembly was designated as an additional representative for species with high intra-species genome diversity.</p></li><li><h5 id=assembly-designated-as-neotype>Assembly designated as neotype</h5><p>The sequences in the genome
|
||
assembly were derived from neotype material.</p></li><li><h5 id=assembly-designated-as-reftype>Assembly designated as reftype</h5><p>The sequences in the genome
|
||
assembly were derived from reftype material.</p></li><li><h5 id=assembly-from-pathotype-material>Assembly from pathotype material</h5><p>The sequences in the genome
|
||
assembly were derived from pathovar type material.</p></li><li><h5 id=assembly-from-synonym-type-material>Assembly from synonym type material</h5><p>The sequences in the
|
||
genome assembly were derived from synonym type material.</p></li><li><h5 id=assembly-from-type-material>Assembly from type material</h5><p>The sequences in the genome
|
||
assembly were derived from type material.</p></li><li><h5 id=ictv-additional-isolate>ICTV additional isolate</h5><p>The <a href=https://ictv.global/ target=_blank>International Committee on
|
||
Taxonomy of Viruses
|
||
(ICTV)</a>
|
||
designated the
|
||
genome assembly as an additional isolate for the virus species.</p></li><li><h5 id=ictv-species-exemplar>ICTV species exemplar</h5><p>The <a href=https://ictv.global/ target=_blank>International Committee on
|
||
Taxonomy of Viruses
|
||
(ICTV)</a>
|
||
designated the
|
||
genome assembly as the exemplar for the virus species.</p></li></ul><h4 id=release-type>Release type</h4><p>Indicates whether this version of the genome assembly
|
||
is a major, minor, or patch release:</p><ul><li><h5 id=major>Major</h5><p>Changes from the previous assembly version result in a
|
||
significant change to the coordinate system. The first version of an
|
||
assembly is always a major release. Most subsequent genome assembly
|
||
updates are also major releases.</p></li><li><h5 id=minor>Minor</h5><p>Changes from the previous assembly version are
|
||
limited to the following changes, none of which result in a
|
||
significant change to the coordinate system of the primary
|
||
assembly unit:</p><ul><li>Adding, removing, or changing a non-nuclear assembly unit.</li><li>Dropping unplaced or unlocalized scaffolds.</li><li>Adding up to 50 unplaced or unlocalized scaffolds shorter than
|
||
the current scaffold-N50 value.</li><li>Replacing a component with a gap of the same length.</li></ul></li><li><h5 id=patch>Patch</h5><p>The only change from the previous assembly version is
|
||
the addition or modification of a patch assembly unit (relevant for
|
||
assemblies maintained by the <a href=https://www.ncbi.nlm.nih.gov/projects/genome/assembly/grc/index.shtml target=_blank>Genome Reference
|
||
Consortium</a>
|
||
).</p></li></ul><h4 id=status>Status</h4><p>The current status for the GenBank and/or RefSeq assembly
|
||
accession.version is shown. The possible values are “latest,”
|
||
“replaced,” or “suppressed.”</p><h4 id=unlocalized-sequence>Unlocalized sequence</h4><p>A sequence found in an assembly associated
|
||
with a specific chromosome that cannot be ordered or oriented on that
|
||
chromosome. The location of these sequences cannot be expressed in
|
||
chromosome coordinates.</p><h4 id=unplaced-sequence>Unplaced sequence</h4><p>A sequence found in an assembly not associated
|
||
with any chromosome. These sequences cannot be expressed in chromosome
|
||
coordinates.</p>Generated March 11, 2025</div><div class=c-global-meta-links><div class="td-page-meta ml-2 pb-1 pt-2 mb-0"></div></div></main></div></div></div><footer><section class=icon-section><div id=icon-section-header class=icon-section_header>Follow NCBI</div><div class="grid-container container"><div class=icon-section_container><a class=footer-icon id=footer_twitter href=https://twitter.com/ncbi aria-label=Twitter><svg width="40" height="40" viewBox="0 0 40 37" fill="none" xmlns="http://www.w3.org/2000/svg"><title>Twitter</title><g id="twitterx1008"><path id="path1008" d="M6.06736 7 16.8778 20.8991 6.00001 32.2H10.2l8.4-9.1 7.068 9.1H34L22.8 17.5 31.9 7H28.4l-7.7 8.4L14.401 7H6.06898 6.06736zM9.66753 8.73423H12.9327l16.8 21.73157h-3.163L9.66753 8.73423z" fill="#5b616b"/></g></svg></a><a class=footer-icon id=footer_facebook href=https://www.facebook.com/ncbi.nlm aria-label=Facebook><svg data-name="Layer 1" xmlns="http://www.w3.org/2000/svg" viewBox="0 0 300 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||
</div>
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`)</script></body><script>Array.from(document.querySelectorAll('.watermarked')).forEach(function(a){a.dataset.watermark=(a.dataset.watermark+' ').repeat(1e3)})</script></html> |