Question is in the title. Imagine you have many bigwig track...and you want to display the same scale for each tracks but you don't want to change viewlimits one by one for all of them. Is there a way to do that in a one time shot for all using maybe session file or Supertrack ,multiwig, composite arguments.
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written
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ZheFrench
You can check the "Oct. 11, 2019 New "group auto-scale" option" here.
Example track file for group of tracks: bigWig
track myComposite
compositeTrack on
shortLabel test
longLabel my_comp_testing
type bigWig
track myFirstSubtrack
parent myComposite on
shortLabel test_1_short
longLabel tes_1_long
type bigWig
visibility full
maxHeightPixels 70:70:32
configurable on
autoScale off
viewLimits 0.0:1.0
alwaysZero on
priority 0.1
bigDataUrl file1.bw
color 0,0,0
track mySecondSubtrack
parent myComposite on
shortLabel test_2_short
longLabel tes_2_long
type bigWig
visibility full
maxHeightPixels 70:70:32
configurable on
autoScale off
viewLimits 0.0:1.0
alwaysZero on
priority 0.1
bigDataUrl file2.bw
color 0,0,255
```
You cannot do this using a normal set of custom tracks. You will need to implement a trackhub. Two useful references are:
Primary UCSC help http://genome.ucsc.edu/goldenPath/help/hgTrackHubHelp.html
Track database definition doc http://genome.ucsc.edu/goldenPath/help/trackDb/trackDbHub.html
Using trackhubs allows you to group data together. You can also select samples based on custom cateorgies, such as replicate, ChIP, input, tissue, etc.
Lots of examples can be seen at: https://genome-euro.ucsc.edu/cgi-bin/hgHubConnect
If you click on the hub name you can look at the necessary files. BTW to use trackhubs you need access to a web-server.
Ian, can he really set the view limits globally if he uses a track hub composite?
Oh sorry, this is probably more the multiWig mode rather than the composite... nevermind... https://genome.ucsc.edu/goldenpath/help/trackDb/trackDbHub.html#multiWig
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While someone may answer these UCSC specific question here you may also want to post them to UCSC browser forum at genome@soe.ucsc.edu