6ee69e5f785ad30ae6171af8b740d2f00f4778a0 braney Mon Nov 4 12:53:08 2019 -0800 add autoScale group to doc diff --git src/hg/htdocs/goldenPath/help/bigWig.html src/hg/htdocs/goldenPath/help/bigWig.html index 08d1b9c..8ab84d1 100755 --- src/hg/htdocs/goldenPath/help/bigWig.html +++ src/hg/htdocs/goldenPath/help/bigWig.html @@ -73,31 +73,31 @@ If the file name ends with a <em>.bigWig</em> or <em>.bw</em> suffix, you can paste the URL directly into the <a href="../../cgi-bin/hgCustom">custom track management page</a>, click "submit" and view the file as a track in the Genome Browser. By default, the file name will be used to name the track. To configure the track label or other visualization options, you must create a <a href="hgTracksHelp.html#TRACK">track line</a>, as shown in <em>Step 8</em>.</p> <p> <strong>Step 8.</strong> Construct a <a href="hgTracksHelp.html#CustomTracks">custom track</a> using a single track line. The most basic version of the track line will look something like this:</p> <pre><code>track type=bigWig name="My Big Wig" description="A Graph of Data from My Lab" bigDataUrl=http://myorg.edu/mylab/myBigWig.bw</code></pre> <p> Paste the custom track line into the text box on the <a href="../../cgi-bin/hgCustom">custom track management page</a>.</p> <p> <a name="optional"></a> -The <code>wigToBigWig</code> program can be run with several optional parameters, including: +bigWig custom track lines can have several optional parameters, including: <pre> <strong>autoScale </strong><em><on|off> </em> # default is on <strong>alwaysZero </strong><em><on|off> </em> # default is off <strong>gridDefault </strong><em><on|off> </em> # default is off <strong>maxHeightPixels </strong><em><max:default:min> </em> # default is 128:128:11 <strong>graphType </strong><em><bar|points> </em> # default is bar <strong>viewLimits </strong><em><lower:upper> </em> # default is range found in data <strong>viewLimitsMax </strong><em><lower:upper> </em> # suggested bounds of viewLimits, but not enforced <strong>yLineMark </strong><em><real-value> </em> # default is 0.0 <strong>yLineOnOff </strong><em><on|off> </em> # default is off <strong>windowingFunction </strong><em><mean+whiskers|maximum|mean|minimum></em> # default is maximum, mean+whiskers is recommended <strong>smoothingWindow </strong><em><off|[2-16]> </em> # default is off <strong>transformFunc </strong><em><NONE|LOG> </em> # default is NONE</pre> <p> For further information on custom bigWig track settings, see the