faffaf6750cf5492f3bd779a8e2d3fe4116e24d6 jnavarr5 Tue Jul 28 14:53:49 2026 -0700 Documenting the codonTable genomes.txt setting on the trackDb hub settings page and the track hub help page, with the changes page now linking to the new settings entry, refs #16550 diff --git src/hg/htdocs/goldenPath/help/trackDb/changes.html src/hg/htdocs/goldenPath/help/trackDb/changes.html index d0a32a14d8c..0378697289f 100755 --- src/hg/htdocs/goldenPath/help/trackDb/changes.html +++ src/hg/htdocs/goldenPath/help/trackDb/changes.html @@ -36,31 +36,31 @@ <p>This document summarizes the changes to the <a href="trackDbHub.html">UCSC Genome Browser Hub TrackDb specification</a>.<p> <TABLE class="settingsTable" id="Common_Settings"> <tbody> <tr valign="TOP"> <th width="100">Date</th> <th width="15%">Track Types</th> <th width="15%">Link to Doc</th> <th>Change</th> </tr> <tr> <td>2026-07-08</td> <td><b>genomes.txt setting</b></td> - <td><a href="../assemblyHubHelp.html#codonTable">codonTable</a></td> + <td><a href="trackDbHub.html#codonTable">codonTable</a></td> <td>New <code>codonTable</code> genome-stanza setting (an assembly hub <code>genomes.txt</code> setting, not a track setting) assigns NCBI genetic codes to individual sequences for amino acid display, e.g. <code>codonTable default=1 NC_017929.1=13</code>. Affects the base position track three-frame translation, codon-colored tracks such as gene predictions, and details pages. Sequences named chrM/chrMT still default to the vertebrate mitochondrial code.</td> </tr> <tr> <td>2026-06-02</td> <td>bigBed, bigGenePred</td> <td><a href="trackDbHub.html#colorFields">colorFields</a></td> <td>New <code>colorFields</code> setting adds a <b>Color by:</b> dropdown to the track controls page, letting users switch among multiple pre-computed color schemes stored as extra bigBed fields containing <code>R,G,B</code> strings.