6710917f67d227676ec78692cce69b8b6a113285 brianlee Tue May 10 11:20:14 2022 -0700 Adding a link to trix doc in bigBed help, refs #28817 diff --git src/hg/htdocs/goldenPath/help/bigBed.html src/hg/htdocs/goldenPath/help/bigBed.html index 256cf07..5a9d6c7 100755 --- src/hg/htdocs/goldenPath/help/bigBed.html +++ src/hg/htdocs/goldenPath/help/bigBed.html @@ -279,31 +279,35 @@ field for color, you must include the <a href="../../FAQ/FAQformat.html#format1"><code>itemRgb</code></a> attribute in the track line. It will look somewhat similar to this (note that you must insert the URL specific to your own bigBed file): <pre><code>track type=bigBed name="bigBed Example Three" description="A bigBed File with Color and two Extra Fields" itemRgb="On" bigDataUrl=http://yourWebAddress/myBigBed2.bb</code></pre></li> <li> Create the custom track on the human assembly hg18 (Mar. 2006), and view it in the Genome Browser (<em>step 8</em>, above). Note that the original BED file contains data on chromosome 7 only.</li> <li> If you are using the bigBed file in a track hub, you can use the additional indices for track item searches. See the setting "searchIndex" in the <a href="trackDb/trackDbHub.html#searchIndex">Track Database Definition Document</a> for more information. For example, if you run the <code>bedToBigBed</code> utility with the option <code>-extraIndex=name</code>, you will be able to search on the "name" field by adding the line <code>searchIndex name</code> to the stanza about your bigBed in the hub's - <em>trackDb.txt</em> file.</li> + <em>trackDb.txt</em> file. While searchIndex expects a search string with an exact match in the + index, another setting for Track Hubs, <a href="trackDb/trackDbHub.html#searchTrix">searchTrix</a> + allows for a fast look-up of free text associated with a list of identifiers, when a + <code>searchIndex</code> has also been created. See a <a href="hubQuickStartSearch.html">Searchable + Track Hub Quick Start Guide</a> here.</li> <li> Extra fields can contain text for labels or for display with mouseover (if the BED "name" field is needed for something that is not the label). See the trackDb settings "<a href="trackDb/trackDbHub.html#mouseOverField">mouseOverField</a>" and "<a href="trackDb/trackDbHub.html#labelField">labelField</a>" for more information.</li> <li> When you click on features, the contents of all extra fields are shown as a table. You can modify the layout of the resulting page with the trackDb settings "<a href="trackDb/trackDbHub.html#skipFields">skipFields</a>", "<a href="trackDb/trackDbHub.html#sepFields">sepFields</a>" and "<a href="trackDb/trackDbHub.html#skipEmptyFields">skipEmptyFields</a>", and transform text fields into links with the "<a href="trackDb/trackDbHub.html#urls">urls</a>" trackDb setting.</li> <li> Extra fields that start with the character "_" are reserved for internal use (special