Question: how to display RNA-seq coverage data in negative strand with log scale?
1
gravatar for mt1022
2.0 years ago by
mt1022180
China
mt1022180 wrote:

Coverage data for negative strand is displayed as negative values in igv. Is there a way to display those data in log scale? For example, if the coverage is -3, I would like it to be displayed as -log(3).

igv rna-seq • 800 views
ADD COMMENTlink modified 2.0 years ago by wuchangcheng6620 • written 2.0 years ago by mt1022180
1

For clarification I am assuming you meant that you want -3 to be displayed as -0.47 (which is the result of -log(3))

IGV allows changing the display of each track by: right click track --> tick log scale option

Alternatively, you can alter the underlying file passed to IGV....that depends on the file format you have

ADD REPLYlink written 2.0 years ago by YaGalbi1.4k
1
gravatar for wuchangcheng66
2.0 years ago by
wuchangcheng6620 wrote:

In wiggle file, coverage times -1.

ADD COMMENTlink written 2.0 years ago by wuchangcheng6620
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