594e3295e115d96e05b3f5b67150704cc30ded0e lrnassar Thu Feb 23 14:36:50 2023 -0800 Updating docs since changing the table schema button to be more general data format description, refs #30491 diff --git src/hg/htdocs/goldenPath/help/hgTracksHelp.html src/hg/htdocs/goldenPath/help/hgTracksHelp.html index 26731bb..df7c4cf 100755 --- src/hg/htdocs/goldenPath/help/hgTracksHelp.html +++ src/hg/htdocs/goldenPath/help/hgTracksHelp.html @@ -938,33 +938,33 @@ <h3>BLAT documentation</h3> <p> For more information on the BLAT suite of programs, see the <a href="blatSpec.html">BLAT Program Specifications</a> and the <a href="../../FAQ/FAQblat.html">Blat section</a> of the Genome Browser FAQ.</p> <a name="IndivTracks"></a> <h2>Annotation track descriptions</h2> <p> Detailed information about an individual annotation track, including display characteristics, configuration information, and associated database tables, may be obtained from the track description page accessed by clicking the mini-button to the left of the displayed track in the Genome Browser, or by selecting the "Open details..." or "Show details..." option from the Genome Browser's <a href="#RIGHT_CLICK_NAV">right-click</a> menu. Click the -"View table schema" link on the track description page to display additional information -about the primary database table underlying the track. Table schema information may also be accessed -via the "describe table schema" button in the <a href="#TableBrowser">Table Browser</a>. +"View data format description" link on the track description page to display additional information +about the primary database table underlying the track. Data format information may also be accessed +via the "data format description" button in the <a href="#TableBrowser">Table Browser</a>. For more information on configuring and using the tracks displayed in the Genome Browser track window, see the section <a href="#FineTuning">Interpreting and Fine-tuning the Genome Browser display</a>.</p> <h3>Tips for viewing annotation track data</h3> <ul> <li> To display a description page with more information about the track, click on the mini-button to the left of a track.</li> <li> To display a details page with additional information about a specific line item within a track in full display mode, click on the item or its label.</li> <li> A track does not appear in the browser if its display mode is set to <em>hide</em>. To restrict the browser's display to only those tracks in which you're interested, set the display mode of the @@ -1438,31 +1438,31 @@ where <em>N</em> is the name of the chromosome. The <em>chrN_random.fa</em> files contain clones that are not yet finished or cannot be placed with certainty at a specific place on the chromosome. In some cases, the <em>chrN_random.fa</em> files also contain haplotypes that differ from the main assembly.</p> <p> <em>Database</em> contains all of the positional and non-positional tables in the genome annotation database. Each table is represented by 2 files:</p> <ul> <li><strong>.sql file:</strong> the SQL commands used to create the table.</li> <li> <strong>.txt.gz file:</strong> the MariaDB database table data in tab-delimited format and compressed with gzip.</li> </ul> <p> Schema descriptions for all tables in the genome annotation database may be viewed by using the -"describe table schema" button in the <a href="#TableBrowser">Table Browser</a>.</p> +"data format description" button in the <a href="#TableBrowser">Table Browser</a>.</p> <p> <em>Cross-species alignments</em> directories, such as the <em>vsMm4</em> and <em>humorMm3Rn3</em> directories in the hg16 assembly, contain pairwise and multiple species alignments and filtered alignment files used to produce cross-species annotations. For more information, refer to the READMEs in these directories and the description of the <a href "../../FAQformat.html#format5">Multiple Alignment Format</a> (MAF).</p> <!-- =======Custom tracks======= --> <a name="CustomTracks"></a> <h2>Creating custom annotation tracks</h2> <!--#include virtual="customTrackText.html"--> <a name="TrackHubs"></a> <h2>Getting started on Track Hubs</h2> <p>