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 @@

To create a custom track using this file:

  1. Construct a track line referencing the file and set the browser position to show region of interest in the file:
    
     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
        
  2. Paste the track line into the custom track management page for the human assembly hg19.
  3. Click the "submit" button.

    - +

-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.

Example #4

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 here.

  1. Download the example file here.
  2. Download the fetchChromSizes and bedToBigBed programs from the utilities directory appropriate to your operating system.
  3. Use fetchChromSizes to create a chrom.sizes file for the UCSC database you