be3e19cef95c229660435527393d852a81da80d2 brianlee Wed Jun 12 14:18:12 2019 -0700 Fixing a maxPixel reference Bob and I noticed in the interact help page. diff --git src/hg/htdocs/goldenPath/help/interact.html src/hg/htdocs/goldenPath/help/interact.html index 80af8f6..c21a9dd 100755 --- src/hg/htdocs/goldenPath/help/interact.html +++ src/hg/htdocs/goldenPath/help/interact.html @@ -94,31 +94,31 @@ BED or other format file to display the source and target region labels.</p> <h2>Creating interact and bigInteract custom tracks</h2> <a name="example1"></a> <h6>Example #1</h6> <p> In this example, you will create an interact custom track using example SNP/gene interaction data in multiple tissues. This example uses the interaction coloring and directionality features of the interact track type. <ol> <li>Paste the following track line into the <a href="../../cgi-bin/hgCustom?db=hg19">custom track management page</a> for the human assembly hg19. <pre><code> -track type=interact name="interact Example One" description="An interact file" interactDirectional=true maxHeightPixels=50:100:200 visibility=full +track type=interact name="interact Example One" description="An interact file" interactDirectional=true maxHeightPixels=200:100:50 visibility=full browser position chr12:40,560,500-40,660,499 #chrom chromStart chromEnd name score value exp color sourceChrom sourceStart sourceEnd sourceName sourceStrand targetChrom targetStart targetEnd targetName targetStrand chr12 40572709 40618813 rs7974522/LRRK2/muscleSkeletal 0 0.624 muscleSkeletal #7A67EE chr12 40572709 40572710 rs7974522 . chr12 40618812 40618813 LRRK2 + chr12 40579899 40618813 rs17461492/LRRK2/muscleSkeletal 0 0.624 muscleSkeletal #7A67EE chr12 40579899 40579900 rs17461492 . chr12 40618812 40618813 LRRK2 + chr12 40614433 40618813 rs76904798/LRRK2/nerveTibial 0 0.625 nerveTibial #FFD700 chr12 40614433 40614434 rs76904798 . chr12 40618812 40618813 LRRK2 + chr12 40618812 40652520 rs2723264/LRRK2/lung 0 1.839 lung #9ACD32 chr12 40652519 40652520 rs2723264 . chr12 40618812 40618813 LRRK2 + </code></pre></li> <li>Click the "submit" button.</li> </ol> </p> <ol> <img width="1080" height="148" src="../../images/interactExample1.png"> </ol> <p> @@ -135,31 +135,31 @@ <a name="example2"></a> <h6>Example #2</h6> <p> In this example, you will create an interact custom track using example chromatin interaction data. This type of data is non-directional and commonly would represent a single experiment, with the interaction score being of interest. The settings below display using the gray-scale coloring feature, where the darkness of the interaction is based on the score. <ol> <li>Paste the following track line into the <a href="../../cgi-bin/hgCustom?db=hg19">custom track management page</a> for the human assembly hg19. <pre><code> -track type=interact name="interact Example Two" description="Chromatin interactions" useScore=on maxHeightPixels=50:100:200 visibility=full +track type=interact name="interact Example Two" description="Chromatin interactions" useScore=on maxHeightPixels=200:100:50 visibility=full browser position chr3:64,562,440-64,642,288 chr3 64496901 64584378 . 375 3 . 0 chr3 64496901 64498901 . . chr3 64581378 64584378 . . chr3 64568052 64569134 . 400 3 . 0 chr20 52552477 52556062 . . chr3 64568052 64569134 . . chr3 64596901 64615378 . 175 3 . 0 chr3 64596901 64600855 . . chr3 64612677 64615378 . . chr3 64623042 64636663 . 800 4 . 0 chr3 64623042 64625153 . . chr3 64632961 64636663 . . </code></pre></li> <li>Click the "submit" button.</li> </ol> </p> <ol> <img width="1080" height="148" src="../../images/interactExample2.png"> </ol> <p> After the file loads in the Genome Browser, you should see four interactions displayed on