Automatically set all bigWig tracks to the same y-axis value

[Andy Rampersaud]

Hi,

I recently set up a session where I have several bigWig tracks along with several other BED files visualizing other genomic features.  To compare signal intensity between bigWig tracks, the y-axis (viewLimits) need to be set to the same number.  In other words, all bigWig track heights need to be set to 12 to see a difference in signal.

To achieve this currently, for each track, the user has to right-click, configure, set data view scaling, set the vertical viewing range.  This is very time consuming if we want to use a different y-axis value for different genomic regions.

Question: is there an easier way to set the y-axis value for all bigWig tracks to be the same number?  This feature would allow the user to set all the tracks to auto-scale or set all the y-axis values to the same number for a particular genomic region (directly from the genome browser page).

Andy

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Andy Rampersaud
Graduate Student, Bioinformatics
Waxman Lab, Boston University

www.linkedin.com/in/andyrampersaud

[Matthew Speir]

Hi Andy,

Thank you for your question about scaling bigWigs in the UCSC Genome Browser.

You can easily change the scaling for all of your bigWig tracks at once by creating a "multiWig" track with them in a track hub. Since you already have bigWig files set up, this shouldn't be too difficult. You can read our Quick Start guides on creating a hub: http://genome.ucsc.edu/goldenPath/help/hubQuickStart.html, and on creating track groupings, such as multiWigs: http://genome.ucsc.edu/goldenPath/help/hubQuickStartGroups.html, for information on how to set this up.

I hope this is helpful. If you have any further questions, please reply to gen...@soe.ucsc.edu. All messages sent to that address are archived on a publicly-accessible Google Groups forum. If your question includes sensitive data, you may send it instead to genom...@soe.ucsc.edu.

Matthew Speir
UCSC Genome Bioinformatics Group

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