98 lines
63 KiB
HTML
98 lines
63 KiB
HTML
<!DOCTYPE html>
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/*# sourceURL=/css/ampshared.css*/</style><meta property="og:locale" content="en_US"><meta property="og:type" content="article"><meta property="og:title" content="Download Randomized Data Subset from NCBI Virus - NCBI Insights"><meta property="og:description" content="Do you need a smaller dataset for your analyses of virus data? In response to your feedback, NCBI Virus now allows you to download a randomized subset of your results for nucleotide, protein, or RefSeq genome sequences from any supported virus (Figure 1). This option is useful for viruses such as SARS-CoV-2 or Influenza A that … Continue reading Download Randomized Data Subset from NCBI Virus →"><meta property="og:url" content="https://ncbiinsights.ncbi.nlm.nih.gov/2023/05/25/randomized-data-ncbi-virus/"><meta property="og:site_name" content="NCBI Insights"><meta property="article:publisher" content="https://www.facebook.com/ncbi.nlm"><meta property="article:published_time" content="2023-05-25T12:46:46+00:00"><meta property="article:modified_time" content="2023-05-25T13:01:36+00:00"><meta property="og:image" content="https://ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/Virus_Randomized-Data-Subset-3-e1684952560609.png"><meta property="og:image:width" content="1100"><meta property="og:image:height" content="575"><meta property="og:image:type" content="image/png"><meta name="author" content="NCBI Staff"><meta name="twitter:card" content="summary_large_image"><meta name="twitter:creator" content="@NCBI"><meta name="twitter:site" content="@NCBI"><meta name="twitter:label1" content="Written by"><meta name="twitter:data1" content="NCBI Staff"><meta name="twitter:label2" content="Est. reading time"><meta name="twitter:data2" content="2 minutes"><meta name="robots" content="index, follow, max-image-preview:large, max-snippet:-1, max-video-preview:-1"><meta name="generator" content="AMP Plugin v2.5.5; mode=reader; theme=legacy"><script async="" src="https://cdn.ampproject.org/v0.mjs" type="module" crossorigin="anonymous"></script><script async nomodule src="https://cdn.ampproject.org/v0.js" crossorigin="anonymous"></script><script src="https://cdn.ampproject.org/v0/amp-social-share-0.1.mjs" async="" custom-element="amp-social-share" type="module" crossorigin="anonymous"></script><script async nomodule src="https://cdn.ampproject.org/v0/amp-social-share-0.1.js" crossorigin="anonymous" custom-element="amp-social-share"></script><style 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<h1 class="amp-wp-title">Download Randomized Data Subset from NCBI Virus</h1>
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2 years ago </time>
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<amp-img width="1024" height="535" src="https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/Virus_Randomized-Data-Subset-3-e1684952560609.png?fit=1024%2C535&ssl=1" class="attachment-large size-large wp-post-image amp-wp-enforced-sizes i-amphtml-layout-intrinsic i-amphtml-layout-size-defined" alt="" srcset="https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/Virus_Randomized-Data-Subset-3-e1684952560609.png?w=1100&ssl=1 1100w, https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/Virus_Randomized-Data-Subset-3-e1684952560609.png?resize=300%2C157&ssl=1 300w, https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/Virus_Randomized-Data-Subset-3-e1684952560609.png?resize=1024%2C535&ssl=1 1024w, https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/Virus_Randomized-Data-Subset-3-e1684952560609.png?resize=150%2C78&ssl=1 150w, https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/Virus_Randomized-Data-Subset-3-e1684952560609.png?resize=768%2C401&ssl=1 768w, https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/Virus_Randomized-Data-Subset-3-e1684952560609.png?resize=270%2C141&ssl=1 270w" sizes="auto, (max-width: 1024px) 100vw, 1024px" data-hero-candidate="" layout="intrinsic" disable-inline-width="" data-hero i-amphtml-ssr i-amphtml-layout="intrinsic"><i-amphtml-sizer slot="i-amphtml-svc" class="i-amphtml-sizer"><img alt="" aria-hidden="true" class="i-amphtml-intrinsic-sizer" role="presentation" src="data:image/svg+xml;base64,PHN2ZyBoZWlnaHQ9IjUzNSIgd2lkdGg9IjEwMjQiIHhtbG5zPSJodHRwOi8vd3d3LnczLm9yZy8yMDAwL3N2ZyIgdmVyc2lvbj0iMS4xIi8+"></i-amphtml-sizer><img class="i-amphtml-fill-content i-amphtml-replaced-content" decoding="async" loading="lazy" alt="" src="https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/Virus_Randomized-Data-Subset-3-e1684952560609.png?fit=1024%2C535&ssl=1" srcset="https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/Virus_Randomized-Data-Subset-3-e1684952560609.png?w=1100&ssl=1 1100w, https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/Virus_Randomized-Data-Subset-3-e1684952560609.png?resize=300%2C157&ssl=1 300w, https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/Virus_Randomized-Data-Subset-3-e1684952560609.png?resize=1024%2C535&ssl=1 1024w, https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/Virus_Randomized-Data-Subset-3-e1684952560609.png?resize=150%2C78&ssl=1 150w, https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/Virus_Randomized-Data-Subset-3-e1684952560609.png?resize=768%2C401&ssl=1 768w, https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/Virus_Randomized-Data-Subset-3-e1684952560609.png?resize=270%2C141&ssl=1 270w" sizes="auto, (max-width: 1024px) 100vw, 1024px"></amp-img> </figure>
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<div class="amp-wp-article-content">
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<p><span class="TextRun SCXW215157566 BCX8" lang="EN-US" data-contrast="auto"><span class="NormalTextRun SCXW215157566 BCX8">Do you need </span><span class="NormalTextRun SCXW215157566 BCX8">a </span><span class="NormalTextRun SCXW215157566 BCX8">smaller </span><span class="NormalTextRun SCXW215157566 BCX8">dataset for your analyses of virus data? </span></span><span class="TextRun Highlight SCXW215157566 BCX8" lang="EN-US" data-contrast="auto"><span class="NormalTextRun SCXW215157566 BCX8" data-ccp-charstyle="normaltextrun" data-ccp-charstyle-defn='{"ObjectId":"c79f6965-a0aa-425f-b06d-117a442f20a3|37","ClassId":1073872969,"Properties":[469775450,"normaltextrun",201340122,"1",134233614,"true",469778129,"normaltextrun",335572020,"1",469778324,"Default Paragraph Font"]}'>In response to your feedback,</span> </span><a class="Hyperlink SCXW215157566 BCX8" href="https://www.ncbi.nlm.nih.gov/labs/virus/vssi/#/virus?SeqType_s=Nucleotide&VirusLineage_ss=Viruses,%20taxid:10239&utm_source=ncbi_insights&utm_source=referral&utm_campaign=virus-download-subset-20230524" target="_blank" rel="noreferrer noopener"><span class="TextRun Underlined SCXW215157566 BCX8" lang="EN-US" data-contrast="none"><span class="NormalTextRun SCXW215157566 BCX8" data-ccp-charstyle="Hyperlink">NCBI Virus</span></span></a><span class="TextRun SCXW215157566 BCX8" lang="EN-US" data-contrast="auto"> <span class="NormalTextRun SCXW215157566 BCX8">now </span><span class="NormalTextRun SCXW215157566 BCX8">allows you to</span> <span class="NormalTextRun SCXW215157566 BCX8">d</span><span class="NormalTextRun SCXW215157566 BCX8">ownload a</span><span class="NormalTextRun SCXW215157566 BCX8"> randomized subset of </span><span class="NormalTextRun SCXW215157566 BCX8">your results</span> <span class="NormalTextRun SCXW215157566 BCX8">for nucleotide, protein, or </span><span class="SpellingError SCXW215157566 BCX8">RefSeq</span><span class="NormalTextRun SCXW215157566 BCX8"> genome sequences from any supported virus</span><span class="NormalTextRun SCXW215157566 BCX8"> </span><span class="NormalTextRun SCXW215157566 BCX8">(Figure 1)</span><span class="NormalTextRun SCXW215157566 BCX8">.</span> <span class="NormalTextRun SCXW215157566 BCX8">This option is useful for viruses such as SARS-CoV-2 or Influenza A that have very large numbers of records, where the entire dataset may present a challenge. In such cases, a smaller representative sample is easier to work with to support your analysis. You can also reduce the bias in a dataset by getting a representative number of records for each country or host (Figure 2). </span></span><span class="EOP SCXW215157566 BCX8" data-ccp-props='{"201341983":0,"335559739":160,"335559740":259}'> </span></p>
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<p><amp-img class="alignright size-full wp-image-11478 amp-wp-enforced-sizes i-amphtml-layout-intrinsic i-amphtml-layout-size-defined" src="https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/NCBI_Virus_Screenshot_1-4.png?resize=1108%2C579&ssl=1" alt="" width="1108" height="579" srcset="https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/NCBI_Virus_Screenshot_1-4.png?w=1200&ssl=1 1200w, https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/NCBI_Virus_Screenshot_1-4.png?resize=300%2C157&ssl=1 300w, https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/NCBI_Virus_Screenshot_1-4.png?resize=1024%2C535&ssl=1 1024w, https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/NCBI_Virus_Screenshot_1-4.png?resize=150%2C78&ssl=1 150w, https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/NCBI_Virus_Screenshot_1-4.png?resize=768%2C401&ssl=1 768w, https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/NCBI_Virus_Screenshot_1-4.png?resize=270%2C141&ssl=1 270w" sizes="auto, (max-width: 1108px) 100vw, 1108px" layout="intrinsic" disable-inline-width="" i-amphtml-layout="intrinsic"><i-amphtml-sizer slot="i-amphtml-svc" class="i-amphtml-sizer"><img alt="" aria-hidden="true" class="i-amphtml-intrinsic-sizer" role="presentation" src="data:image/svg+xml;base64,PHN2ZyBoZWlnaHQ9IjU3OSIgd2lkdGg9IjExMDgiIHhtbG5zPSJodHRwOi8vd3d3LnczLm9yZy8yMDAwL3N2ZyIgdmVyc2lvbj0iMS4xIi8+"></i-amphtml-sizer><noscript><img loading="lazy" decoding="async" src="https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/NCBI_Virus_Screenshot_1-4.png?resize=1108%2C579&ssl=1" alt="" width="1108" height="579" srcset="https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/NCBI_Virus_Screenshot_1-4.png?w=1200&ssl=1 1200w, https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/NCBI_Virus_Screenshot_1-4.png?resize=300%2C157&ssl=1 300w, https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/NCBI_Virus_Screenshot_1-4.png?resize=1024%2C535&ssl=1 1024w, https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/NCBI_Virus_Screenshot_1-4.png?resize=150%2C78&ssl=1 150w, https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/NCBI_Virus_Screenshot_1-4.png?resize=768%2C401&ssl=1 768w, https://i0.wp.com/ncbiinsights.ncbi.nlm.nih.gov/wp-content/uploads/2023/05/NCBI_Virus_Screenshot_1-4.png?resize=270%2C141&ssl=1 270w" sizes="auto, (max-width: 1108px) 100vw, 1108px"></noscript></amp-img></p>
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<p><em>Figure 1: Virus Download Results menu with the option to “Download a randomized subset of all records (up to 2,000)” </em></p>
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<p><span data-contrast="auto">“Download a randomized subset” option provides two types of random subsets: </span><span data-ccp-props='{"201341983":0,"335551550":6,"335551620":6,"335559739":160,"335559740":259}'> </span></p>
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<ul>
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<li data-leveltext="" data-font="Symbol" data-listid="1" data-list-defn-props='{"335552541":1,"335559684":-2,"335559685":720,"335559991":360,"469769226":"Symbol","469769242":[8226],"469777803":"left","469777804":"","469777815":"hybridMultilevel"}' aria-setsize="-1" data-aria-posinset="1" data-aria-level="1"><span data-contrast="auto"> 2,000 entries selected randomly from the entire data set </span><span data-ccp-props='{"201341983":0,"335551550":6,"335551620":6,"335559739":160,"335559740":259}'> </span></li>
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<li data-leveltext="" data-font="Symbol" data-listid="1" data-list-defn-props='{"335552541":1,"335559684":-2,"335559685":720,"335559991":360,"469769226":"Symbol","469769242":[8226],"469777803":"left","469777804":"","469777815":"hybridMultilevel"}' aria-setsize="-1" data-aria-posinset="2" data-aria-level="1"><span data-contrast="auto"> 20 random records from each country or each host in your data set (Figure 2)</span><span data-contrast="auto"> </span><span data-ccp-props='{"201341983":0,"335551550":6,"335551620":6,"335559739":160,"335559740":259}'> </span></li>
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</ul>
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<p><b><span data-contrast="auto">Important Note:</span></b><span data-contrast="auto"> The randomized subsets option is only available for the data type (Nucleotide, Protein, or RefSeq Genome) selected above the results table on the webpage. Before downloading, you can still apply filters to narrow down the sequences in your dataset. </span><span data-ccp-props='{"201341983":0,"335551550":6,"335551620":6,"335559685":0,"335559739":160,"335559740":259}'> </span></p>
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<p><em>Figure 2: Download menu showing options to get up to 2000 randomized records or up to 20 random records stratified by Country or Host. </em></p>
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<p><span data-contrast="auto">You can download data in all supported formats including:</span><span data-ccp-props='{"201341983":0,"335551550":6,"335551620":6,"335559739":160,"335559740":259}'> </span></p>
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<ul>
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<li data-leveltext="" data-font="Symbol" data-listid="2" data-list-defn-props='{"335552541":1,"335559684":-2,"335559685":720,"335559991":360,"469769226":"Symbol","469769242":[8226],"469777803":"left","469777804":"","469777815":"hybridMultilevel"}' aria-setsize="-1" data-aria-posinset="1" data-aria-level="1"><span data-contrast="auto">Results table showing metadata</span><span data-ccp-props='{"201341983":0,"335551550":6,"335551620":6,"335559739":160,"335559740":259}'> </span></li>
|
||
<li data-leveltext="" data-font="Symbol" data-listid="2" data-list-defn-props='{"335552541":1,"335559684":-2,"335559685":720,"335559991":360,"469769226":"Symbol","469769242":[8226],"469777803":"left","469777804":"","469777815":"hybridMultilevel"}' aria-setsize="-1" data-aria-posinset="2" data-aria-level="1"><span data-contrast="auto">List of accessions</span><span data-ccp-props='{"201341983":0,"335551550":6,"335551620":6,"335559739":160,"335559740":259}'> </span></li>
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<li data-leveltext="" data-font="Symbol" data-listid="2" data-list-defn-props='{"335552541":1,"335559684":-2,"335559685":720,"335559991":360,"469769226":"Symbol","469769242":[8226],"469777803":"left","469777804":"","469777815":"hybridMultilevel"}' aria-setsize="-1" data-aria-posinset="3" data-aria-level="1"><span data-contrast="auto">FASTA sequences using default or custom definition lines</span><span data-ccp-props='{"201341983":0,"335551550":6,"335551620":6,"335559739":160,"335559740":259}'> </span></li>
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