e30de45e8bf6c3f67d07728c32cdbb77833ff76f brianlee Mon Jun 6 11:41:47 2022 -0700 Adding a link to bigNarrowPeak from narrowPeak entry on FAQformats refs #29544 diff --git src/hg/htdocs/FAQ/FAQformat.html src/hg/htdocs/FAQ/FAQformat.html index 6326a04..6eff1c2 100755 --- src/hg/htdocs/FAQ/FAQformat.html +++ src/hg/htdocs/FAQ/FAQformat.html @@ -1184,30 +1184,33 @@ <li> <strong>qValue</strong> - Measurement of statistical significance using false discovery rate (-log10). Use -1 if no qValue is assigned.</li> <li> <strong>peak</strong> - Point-source called for this peak; 0-based offset from chromStart. Use -1 if no point-source called.</li> </ol> <p> Here is an example of narrowPeak format:</p> <pre><code>track type=narrowPeak visibility=3 db=hg19 name="nPk" description="ENCODE narrowPeak Example" browser position chr1:9356000-9365000 chr1 9356548 9356648 . 0 . 182 5.0945 -1 50 chr1 9358722 9358822 . 0 . 91 4.6052 -1 40 chr1 9361082 9361182 . 0 . 182 9.2103 -1 75 </code></pre> +There is also a format of narrowPeak called <a href="../goldenPath/help/bigNarrowPeak.html" +target="_blank">bigNarrowPeak</a>, a version of <a href="../goldenPath/help/bigBed.html" +target="_blank">bigBed</a>, which enables using this point-source display in Track Hubs.</p> <a name="format13"></a> <h2>ENCODE broadPeak: Broad Peaks (or Regions) format</h2> <p> This format is used to provide called regions of signal enrichment based on pooled, normalized (interpreted) data. It is a BED 6+3 format.</p> <ol> <li> <strong>chrom</strong> - Name of the chromosome (or contig, scaffold, etc.).</li> <li> <strong>chromStart</strong> - The starting position of the feature in the chromosome or scaffold. The first base in a chromosome is numbered 0.</li> <li> <strong>chromEnd</strong> - The ending position of the feature in the chromosome or scaffold. The <em>chromEnd</em> base is not included in the display of the feature. For example, the first 100