f06a9447a309d1f7084c87f0d65290a0fba435d9 gperez2 Sat Jan 10 17:34:05 2026 -0800 Updating the doc to say that mean+whiskers is the default for windowingFunction, refs #27966 diff --git src/hg/htdocs/goldenPath/help/trackDb/trackDbLibrary.shtml src/hg/htdocs/goldenPath/help/trackDb/trackDbLibrary.shtml index 95390f7431b..50a7f4c7dfd 100644 --- src/hg/htdocs/goldenPath/help/trackDb/trackDbLibrary.shtml +++ src/hg/htdocs/goldenPath/help/trackDb/trackDbLibrary.shtml @@ -2945,42 +2945,42 @@ wigColorBy myBed color 175,150,128 altColor 255,128,0 </pre> <P>The bed-type table "myBed" is used to highlight regions of graphed signal based upon the scores in that table. The table may itself be a visible track, or may exist only for the purpose of highlighting the signal track.</P> </DIV> <DIV class="windowingFunction"><span class="types wig bigWig bedGraph"></span> <div class="format"><code>windowingFunction <mean/mean+whiskers/maximum/minimum></code></div> <P>Depending upon how large of a genomic region is displayed in the Browser image, it may be necessary to summarize the actual signal. This user-configurable setting controls how the Browser collapses the signal from (for example) 100 or 100 thousand bases down to - a single pixel. By default - the single pixel represents the <code>mean</code> of the data, though the - <code>maximum</code> or <code>minimum</code> can alternatively be displayed. A more informative - option is often <code>mean+whiskers</code>. This setting displays the - mean, max and one standard deviation above mean, differentiated by shading. + a single pixel. By default, the data is shown using <code>mean+whiskers</code> + display, though the <code>maximum</code>, <code>mean</code>, + or <code>minimum</code> can alternatively be displayed. + The <code>mean+whiskers</code> setting displays the mean, max, and one + standard deviation above the mean, differentiated by shading. The mean is displayed as the darkest shade, one stdDev above mean as slightly lighter, and the max as the lightest shade. This subtle shading can quickly indicate if the condensed data is hiding important information that can be adequately evaluated only by zooming in.</P> <P><B>Example:</B></P> - <pre> windowingFunction mean+whiskers</pre> + <pre> windowingFunction mean</pre> <P>When zoomed out, this track will show the mean signal but include shading representing higher scores. The user may change this setting.</P> </DIV> <DIV class="yLineMark"><span class="types wig bigWig bedGraph"></span> <div class="format"> <code>yLineMark <#></code><BR> <code>yLineOnOff <off/on></code><BR> <code>gridDefault on</code></div> <P>It can be useful to draw a line across the track's signal graph at some fixed y coordinate. Do this by setting <code>yLineOnOff</code> to "on" and specifying the y coordinate with <code>yLineMark</code>. These two settings are configurable by the user. Defaults: off and 0.0.</P>