123 lines
7.8 KiB
HTML
123 lines
7.8 KiB
HTML
<!DOCTYPE html>
|
|
<!-- $Id: embedded_big_wig_bed.html 47770 2024-07-25 18:40:49Z evgeniev $ -->
|
|
<html lang="en" >
|
|
<head >
|
|
<title>NCBI Sequence Viewer 3.50.0 Remote (HTTP-hosted) BAM files Demo</title>
|
|
<meta charset="UTF-8">
|
|
<meta http-equiv="X-UA-Compatible" content="IE=edge">
|
|
|
|
<!-- Mobile properties -->
|
|
<meta name="HandheldFriendly" content="True">
|
|
<meta name="MobileOptimized" content="320">
|
|
<meta name="viewport" content="width=device-width, initial-scale=1.0">
|
|
<link rel="preconnect" href="https://fonts.googleapis.com">
|
|
<link rel="preconnect" href="https://fonts.gstatic.com" crossorigin>
|
|
<link href="https://fonts.googleapis.com/css2?family=Open+Sans:ital,wght@0,300;0,400;0,500;0,600;0,700;1,300;1,400;1,500;1,600;1,700&family=Roboto:ital,wght@0,100;0,300;0,400;0,500;0,700;1,100;1,300;1,400;1,500;1,700&display=swap" rel="stylesheet">
|
|
<link rel="stylesheet" href="/cgv/static/django_uswds/uswds/css/uswds.css" />
|
|
|
|
<link rel="stylesheet" href="/cgv/static/nwds/css/nwds.css" />
|
|
<link rel="stylesheet" href="/cgv/static/nwds/css/header.css" />
|
|
<link rel="stylesheet" href="/cgv/static/nwds/css/footer.css" />
|
|
<link rel="stylesheet" href="/cgv/static/nwds/css/form.css" />
|
|
|
|
<link rel="stylesheet" href="css/uswds-fix.css" />
|
|
|
|
<style>
|
|
main { font-size: 1.4em; padding-left: 2rem;}
|
|
html { font-size: 10px; font-family: Roboto,sans-serif; }
|
|
h2 {
|
|
color: #336699;
|
|
font-family: Verdana, Georgia;
|
|
font-size: 108%;
|
|
font-weight: bold;
|
|
}
|
|
.content {margin: 1em; font-size:13px;}
|
|
.content h1 { font-size: 2em; }
|
|
</style>
|
|
|
|
<!-- Favicons -->
|
|
<link rel="shortcut icon" type="image/ico" href="https://www.ncbi.nlm.nih.gov/coreutils/nwds/img/favicons/favicon.ico" />
|
|
<link rel="icon" type="image/png" href="https://www.ncbi.nlm.nih.gov/coreutils/nwds/img/favicons/favicon.png" />
|
|
|
|
<link rel="icon" type="image/png" sizes="192x192" href="https://www.ncbi.nlm.nih.gov/coreutils/nwds/img/favicons/favicon-192.png" />
|
|
|
|
<!-- 57x57 (precomposed) for iPhone 3GS, pre-2011 iPod Touch and older Android devices -->
|
|
<link rel="apple-touch-icon-precomposed" href="https://www.ncbi.nlm.nih.gov/coreutils/nwds/img/favicons/favicon-57.png">
|
|
<!-- 72x72 (precomposed) for 1st generation iPad, iPad 2 and iPad mini -->
|
|
<link rel="apple-touch-icon-precomposed" sizes="72x72" href="https://www.ncbi.nlm.nih.gov/coreutils/nwds/img/favicons/favicon-72.png">
|
|
<!-- 114x114 (precomposed) for iPhone 4, 4S, 5 and post-2011 iPod Touch -->
|
|
<link rel="apple-touch-icon-precomposed" sizes="114x114" href="https://www.ncbi.nlm.nih.gov/coreutils/nwds/img/favicons/favicon-114.png">
|
|
<!-- 144x144 (precomposed) for iPad 3rd and 4th generation -->
|
|
<link rel="apple-touch-icon-precomposed" sizes="144x144" href="https://www.ncbi.nlm.nih.gov/coreutils/nwds/img/favicons/favicon-144.png">
|
|
|
|
<meta name="robots" content="index, follow"/>
|
|
<meta name="description" content="NCBI Sequence Viewer"/>
|
|
<!-- applog meta tags -->
|
|
<meta name="ncbi_app" content="sviewer-js" />
|
|
<script src="/cgv/static/js/jquery.js"></script>
|
|
<script src="js/sviewer.js"></script>
|
|
|
|
</head>
|
|
<body >
|
|
<div id="header"></div>
|
|
|
|
<nav class="ncbi-topnav">
|
|
<ul class="ncbi-topnav-list">
|
|
<li><a href="." target="_self">NCBI Sequence Viewer Home</a></li>
|
|
<li><a href="/tools/sviewer" target="_blank">Help</a></li>
|
|
<li><a href="/tools/sviewer/release-notes" target="_blank">Release Notes</a></li>
|
|
</ul>
|
|
</nav>
|
|
|
|
<main id="main_content" accesskey="3">
|
|
<div class="content">
|
|
<h1>BigBED and BigWIG files visualization demo</h1>
|
|
<h2>Introduction</h2>
|
|
<p/>
|
|
These examples demonstrate visualization of remote (HTTP-based) BigBED and BigWIG files in NCBI Sequence Viewer.<br>
|
|
|
|
<p/>
|
|
<p/>
|
|
<h3>Example 1</h3>
|
|
<p/>
|
|
|
|
|
|
|
|
Homo sapiens chromosome 21, GRCh38.p12 Primary Assembly (<a href="https://www.ncbi.nlm.nih.gov/assembly/GCF_000001405.38">https://www.ncbi.nlm.nih.gov/assembly/GCF_000001405.38</a>)<br>
|
|
BigWIG file is hosted at (<a href="http://hgdownload.soe.ucsc.edu/hubs/gtexAnalysis/hg38/gtexAwgAseDensity.bw">http://hgdownload.soe.ucsc.edu/hubs/gtexAnalysis/hg38/gtexAwgAseDensity.bw</a>)
|
|
<div id="SViewer0" class="SeqViewerApp" data-autoload><a href="?embedded=full&appname=rbamdemo&id=NC_000021&tracks=[key:sequence_track][key:graph_track,dbname:bigWig,category:Remote%20Data,annots:http\://hgdownload.soe.ucsc.edu/hubs/gtexAnalysis/hg38/gtexAwgAseDensity.bw,style:histogram,scale:linear,sdthresh:5,fixed_scale:false,clip:false,rmt_mapped_id:chr21,shown:true]&assm_context=GCF_000001405.38"></a>
|
|
</div>
|
|
<p/>
|
|
<h3>Example 2</h3>
|
|
</p>
|
|
Homo sapiens chromosome 21, GRCh38.p12 Primary Assembly (<a href="https://www.ncbi.nlm.nih.gov/assembly/GCF_000001405.38">https://www.ncbi.nlm.nih.gov/assembly/GCF_000001405.38</a>)<br>
|
|
BigBED file is hosted at (<a href="http://hgdownload.soe.ucsc.edu/hubs/gtexAnalysis/hg38/gtexAwgAseAdiposeSubcut.bb">http://hgdownload.soe.ucsc.edu/hubs/gtexAnalysis/hg38/gtexAwgAseAdiposeSubcut.bb</a>)
|
|
|
|
<div id="SViewer1" class="SeqViewerApp" data-autoload><a href="?embedded=full&appname=rbamdemo&id=NC_000021&tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:false,shown:true,order:1][key:feature_track,name:RF9HJgAAA0F31,subkey:auto,dbname:bigBed,category:Remote Data,annots:http\://hgdownload.soe.ucsc.edu/hubs/gtexAnalysis/hg38/gtexAwgAseAdiposeSubcut.bb,Layout:Adaptive,LinkedFeat:Default,rmt_mapped_id:chr21,shown:true,order:27]&assm_context=GCF_000001405.38&v=1:46709983&c=FFCC99&select=null&slim=0"></a>
|
|
</div>
|
|
<p/>
|
|
|
|
|
|
<p/>
|
|
<h3>Example 3</h3>
|
|
</p>
|
|
Two remote tracks rendered in the same graphical view.
|
|
Homo sapiens chromosome 21, GRCh38.p12 Primary Assembly(<a href="https://www.ncbi.nlm.nih.gov/assembly/GCF_000001405.38">https://www.ncbi.nlm.nih.gov/assembly/GCF_000001405.38</a>)<br>
|
|
BigBED file is hosted at (<a href="http://hgdownload.soe.ucsc.edu/hubs/gtexAnalysis/hg38/gtexAwgAseAdiposeSubcut.bb">http://hgdownload.soe.ucsc.edu/hubs/gtexAnalysis/hg38/gtexAwgAseAdiposeSubcut.bb</a>)
|
|
BigWIG file is hosted at (<a href="http://hgdownload.soe.ucsc.edu/hubs/gtexAnalysis/hg38/gtexAwgAseDensity.bw">http://hgdownload.soe.ucsc.edu/hubs/gtexAnalysis/hg38/gtexAwgAseDensity.bw</a>)
|
|
<div id="SViewer2" class="SeqViewerApp" data-autoload><a href="?embedded=full&appname=rbamdemo&id=NC_000021&tracks=[key:sequence_track,name:Sequence,display_name:Sequence,id:STD1,category:Sequence,annots:Sequence,ShowLabel:false,shown:true,order:0][key:graph_track,dbname:bigWig,category:Remote%20Data,annots:http\://hgdownload.soe.ucsc.edu/hubs/gtexAnalysis/hg38/gtexAwgAseDensity.bw,style:histogram,scale:linear,sdthresh:5,fixed_scale:false,clip:false,rmt_mapped_id:chr21,shown:true,order:1]
|
|
[key:feature_track,name:RF9HJgAAA0F31,subkey:auto,dbname:bigBed,category:Remote Data,annots:http\://hgdownload.soe.ucsc.edu/hubs/gtexAnalysis/hg38/gtexAwgAseAdiposeSubcut.bb,Layout:Adaptive,LinkedFeat:Default,rmt_mapped_id:chr21,shown:true,order:2]&assm_context=GCF_000001405.38&v=1:46709983&c=FFCC99&select=null&slim=0"></a>
|
|
</div>
|
|
<p/>
|
|
|
|
</div>
|
|
</main>
|
|
<div id="footer"></div>
|
|
<script>
|
|
$(document).ready(function(){
|
|
$('#header').load("header.html");
|
|
$('#footer').load("footer.html");
|
|
});
|
|
</script>
|
|
</body>
|
|
</html>
|