60cc449248255df9e198db757a627cc31c8f6e4d dschmelt Thu May 30 15:19:57 2019 -0700 Code review changing quot char to " and adding spaces #23570 diff --git src/hg/htdocs/FAQ/FAQlink.html src/hg/htdocs/FAQ/FAQlink.html index ec19c73..962f215 100755 --- src/hg/htdocs/FAQ/FAQlink.html +++ src/hg/htdocs/FAQ/FAQlink.html @@ -32,41 +32,41 @@ indicate places where the user supplies information.</p> <p> You will be able to share Genome Browser sessions with the following link format:</p> <p><code>http://genome.ucsc.edu/s/<userName>/<sessionName></code></p> <p> For instructions on creating a saved session, go to the <a href="../goldenPath/help/hgSessionHelp.html#Create" target ="_blank">session user guide</a>. If you want to specify track settings in a URL directly, please read the section on <a href="#trackViz">setting track visibility via URL</a> for a complete description. </p> <p> Or if you prefer the older style, which allows you to link to different tools, you may use the following format:</p> <p><code>http://genome.ucsc.edu/cgi-bin/hgTracks?hgS_doOtherUser=submit&hgS_otherUserName=<userName>&gS_otherUserSessionName=<sessionName></code></p> <p> -This longer format has the flexibility of replacing "hgTracks" with different tool names to share +This longer format has the flexibility of replacing "hgTracks" with different tool names to share saved settings on the Table Browser (hgTables), Variant Annotation Integrator (hgVai), or Data Integrator (hgIntegrator). This will preserve your option selections and can be useful to share. The following format will bring the recipient to a user's custom Table Browser selections:</p> <p><code>http://genome.ucsc.edu/cgi-bin/hgTables?hgS_doOtherUser=submit&hgS_otherUserName=<userName>&hgS_otherUserSessionName=<sessionName></code></p> <p>Both session link formats have the advantage of being able to add URL parameters to the end. The shorter link format requires a question mark before any URL parameters, with ampersand characters separating different parameters like so: </p> <p><code><a href=http://genome.ucsc.edu/s/view/clinicalzoom?textSize=18>http://genome.ucsc.edu/s/view/clinicalzoom?textSize=18</a></code></p> -<p>The longer format requires an ampersand between each parameter, like so:</p> +<p>Both formats require an ampersand between each additional parameter, seen in the longer format like so:</p> <p><code><a href=http://genome.ucsc.edu/cgi-bin/hgTracks?hgS_doOtherUser=submit&hgS_otherUserName=view&hgS_otherUserSessionName=clinicalzoom&textSize=18>http://genome.ucsc.edu/cgi-bin/hgTracks?hgS_doOtherUser=submit&hgS_otherUserName=view&hgS_otherUserSessionName=clinicalzoom&textSize=18</a></code></p> <a name="link2"></a> <h2>Linking to the Browser at a specific position</h2> <h6>How do I make a link to a specific genome or position?</h6> <p> You can link to a specific genome assembly and position in the Genome Browser using a URL with the <code>db=</code> and <code>position=</code> parameters.</p> <p><code>http://genome.ucsc.edu/cgi-bin/hgTracks?db=<assembly>&position=<position></code></p> <p> Where:</p> <ul> <li> <code>db</code> - designates a specific genome assembly. For example, <code>db=hg19</code> refers to the Feb. 2009 human genome release. For a list of db parameter values that @@ -79,32 +79,32 @@ <p>The following link is an example of a URL that declares assembly and position:</p> <p><code><a href="../cgi-bin/hgTracks?db=hg19&position=chr1:35000-40000">http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg19&position=chr1:35000-40000</a></code></p> <a name="trackViz"></a> <h2>Setting Track Visibility via URL</h2> <h6>How do I create a custom URL to control the visibility of specific tracks?</h6> <p> You can control the visibility of tracks from the URL with the following parameters, each linked by the "&" sign, similar to position parameters. For more information, please see the <a href="../goldenPath/help/customTrack.html#optParams" target ="_blank">optional URL parameters</a> section of the Custom Tracks User's Guide.</p> <ul> <li><code>hideTracks=1</code> - hides all tracks</li> <li><code><trackName>=hide|dense|pack|full</code> - sets specified track or subtrack to a chosen visibility</li> -<li><code>textSize=<number></code> - sets browser text size to either 6,8,10,12,14,18,24,or -34. Default is a textSize of 8.</li> +<li><code>textSize=<number></code> - sets browser text size to either 6, 8, 10, 12, 14, 18, +24, or 34. Default is a textSize of 8.</li> <li><code>ignoreCookie=1</code> - removes pre-existing user settings like track seletion, custom tracks, and track hubs</li> </ul> <p> For example, you can use the following command to hide every track (hideTracks=1) and set the knownGene track to the pack visibility (knownGene=pack):</p> <p><code><a href="../cgi-bin/hgTracks?db=hg38&hideTracks=1&knownGene=pack">http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&hideTracks=1&knownGene=pack</a></code></p> <p>Composite tracks have additional URL parameters that encode options to hide, select, and display subtracks.</p> <ul> <li><code><trackName>_hideKids=1</code> - hides a specific composite track's subtracks</li> <li><code><trackName>_sel=1</code> - selects specific subtrack to be 'checked', allowing display</li> </ul>