a45eed27f6c88468204a738e2c8c6da278b61898 brianlee Thu May 16 15:06:49 2019 -0700 Adjusting image and adding more description about the image of interactUp refs #23299 diff --git src/hg/htdocs/goldenPath/help/interact.html src/hg/htdocs/goldenPath/help/interact.html index 410e232..80af8f6 100755 --- src/hg/htdocs/goldenPath/help/interact.html +++ src/hg/htdocs/goldenPath/help/interact.html @@ -182,35 +182,36 @@ <p> To create a custom track using this file: <ol> <li>Construct a track line referencing the file and set the browser position to show region of interest in the file: <pre><code> track type=bigInteract interactUp=true name="interact Example Three" description="A bigInteract file" useScore=on visibility=full bigDataUrl=http://genome.ucsc.edu/goldenPath/help/examples/interact/interactExample3.inter.bb browser position chr3:63,820,967-63,880,091 </code></pre></li> <li>Paste the track line into the <a href="../../cgi-bin/hgCustom?db=hg19">custom track management page</a> for the human assembly hg19. </li> <li>Click the "submit" button.</li> </ol> </p> <ol> -<img width="1080" height="148" src="../../images/interactExample3.png"> +<img width="1080" height="170" src="../../images/interactExample3.png"> </ol> <p> -After the file loads in the Genome Browser, you should see a number of curved interactions, -colored black. +After the file loads in the Genome Browser, you should see a number of interactions, all arching +as hills instead of valleys, with some curved and many rectangular indicating a connector to a region +outside of the browser window. Press the 10x zoom out button to see the full connections. </p> <a name="example4"></a> <h6>Example #4</h6> <p> In this example, you will use an example BED file to create a bigInteract file, allowing the data to be remotely accessed and exist within a track hub. The track settings for bigInteract on a hub can be viewed <a href="./trackDb/trackDbHub.html#bigInteract">here</a>. </p> <ol> <li>Download the example file <a href="examples/interact/interactExample4.inter.bed">here</a>. </li> <li>Download the <em>fetchChromSizes</em> and <em>bedToBigBed</em> programs from the <a href="http://hgdownload.soe.ucsc.edu/admin/exe">utilities directory</a> appropriate to your operating system. <li>Use <em>fetchChromSizes</em> to create a <em>chrom.sizes</em> file for the UCSC database you