Question: UCSC hub: autoscale option for multiwig track
gravatar for m93
17 months ago by
m93200 wrote:

I am making a hub on UCSC Genome Browser and I am aiming to display multiple bigWig files as a single track (multiwig container). I decided to use the autoscale option because I wanted a dynamic scale: y axis changing depending on the maximum values in the current observed window.

However, I am confused as to how to the relationship between:

  • autoscale on and viewLimits
  • autoscale on and type bigWig <#> <#>

For the "type" option, the official documentation mentions that: "The remote data files of type bigWig must declare the expected signal range for the data"

So my question is, are the following assumptions correct:

  • If I have autoscale on, viewLimits and type don't really matter anymore
  • You still have to specify "type bigWig" but you no longer have to put a range (i.e. the <#> <#>)
  • You don't have to viewLimits.

If this is correct, my trackDb.txt file will look as such::

track data
container multiWig
configurable on
shortLabel label data
longLabel long label data
visibility full
priority 1
type bigWig
autoScale on
aggregate transparentOverlay
windowingFunction mean
showSubtrackColorOnUi on

    track sample1
    bigDataUrl path/to/
    shortLabel s_sample1
    longLabel s_sample1
    type bigWig
    visibility full
    alwaysZero on
    priority 120
    color 220,180,180
    parent data on

    track sample2
    bigDataUrl path/to/
    shortLabel s_sample2
    longLabel s_sample2
    type bigWig
    visibility full
    alwaysZero on
    priority 120
    color 220,180,180
    parent data on

ucsc track autoscale multiwig • 550 views
ADD COMMENTlink modified 17 months ago • written 17 months ago by m93200
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