9b46c8ee5e9bc0dfd758600b92402d7e09155c01 brianlee Wed Jan 22 15:27:27 2020 -0800 Adding a hint about group auto-scale setting being adjustable in terms of opting out subtracks in a composite refs #24770 diff --git src/hg/htdocs/goldenPath/help/hgWiggleTrackHelp.html src/hg/htdocs/goldenPath/help/hgWiggleTrackHelp.html index 330e535..a7db965 100755 --- src/hg/htdocs/goldenPath/help/hgWiggleTrackHelp.html +++ src/hg/htdocs/goldenPath/help/hgWiggleTrackHelp.html @@ -37,31 +37,42 @@ <ul> <li>When viewing signal tracks within a composite group use "group auto-scale" to enable having all tracks scaled against the one track in the group that has the highest maximum data points in the current view. For example, below is a side-by-side image of two views of the same data from a selection of cell lines within a composite of related RNA-seq experiments. On the left is the original "auto-scale to data view" setting, where each track is auto-scaled to appear at each track's highest value. And on the right is the new "group auto-scale" setting for the same RNA-seq data where all tracks are scaled against the one track in the region that has the highest value (67215 for IMR9 cell TAP + 1).<br> <img src="../../images/groupAutoScale.png" width='600' alt="Auto-scale comparison"><br> Click this <a href="/cgi-bin/hgTracks?hgS_doLoadUrl=submit&hgS_loadUrlName=http://genome.ucsc.edu/goldenPath/help/examples/sessions/session.autoScale" target="_blank">link</a> to interact with the original "auto-scale to data view" on the left, and to contrast the results with the new "group auto-scale" click this <a href="/cgi-bin/hgTracks?hgS_doLoadUrl=submit&hgS_loadUrlName=http://genome.ucsc.edu/goldenPath/help/examples/sessions/session.groupAutoScale" - target="_blank">link</a>.</li> + target="_blank">link</a>. + <li>Note that the "group auto-scale" setting is meant to be turned on and off at the + composite group track set level, but you can toggle individual tracks. For instance, + click the second "group auto-scale" session + <a href="/cgi-bin/hgTracks?hgS_doLoadUrl=submit&hgS_loadUrlName=http://genome.ucsc.edu/goldenPath/help/examples/sessions/session.groupAutoScale" + target="_blank">link</a> that has all tracks adjusted to + the highest value (67215 for IMR9 cell TAP + 1). If you right-click that individual highest track + and instead of configuring the track set, select to configure only the subtract IMR9 cell TAP + 1 + from "group auto-scale" to "auto-scale to data view" and select OK + and then refresh your browser window (or click one of the "refresh" buttons on the + screen) you will see all the tracks adjust to the next-highest track within all tracks + still tagged to display "group auto-scale" (39320 for IMR9 cell + 1).</li> </ul> <p> <strong>Vertical viewing range (boxed in red)</strong>: The min and max values specify the vertical portion of the graph that is displayed (default range is 30-70). These numbers can be used to set data threshold indicators. For example, to display only those GC values greater than 50 percent, set the min value to "50".</p> <p> <strong>Transform function</strong>: Transforms the data points by the function selected in the drop-down menu. Usually the default setting is "None".</p> <p> <strong>Windowing function</strong>: When a view is too large to show individual data values, the values must be combined to produce a plot point. This option specifies the combining function to be used (default is "Mean"):</p> <ul> <li>