Question: bedgraph file format in IGV: good for observing CNV ?
0
gravatar for Pin.Bioinf
6 months ago by
Pin.Bioinf250
Malaga
Pin.Bioinf250 wrote:

Hello,

I found here that I can use begraph format to observe CNV in IGV. Suposedly, I will be able to see overrepresentations and deletions, so I converted my (aligned reads) bam file to bedgraph and opened it on IGV.

My question is if what I am seeing is actually an overrepresentation, see image attached.

 bedgraph file opened with IGV. An overrepresentation?

igv cnv bedgraph • 235 views
ADD COMMENTlink modified 6 months ago • written 6 months ago by Pin.Bioinf250
1

How to add images to a Biostars post

ADD REPLYlink written 6 months ago by WouterDeCoster39k

how is it different from your previous question ? How can I tell if there is CNV for specific gene in IGV?

ADD REPLYlink written 6 months ago by Pierre Lindenbaum120k

Because I have found bedgraph format, and i am adding an image to see if i am on the correct path

ADD REPLYlink modified 6 months ago • written 6 months ago by Pin.Bioinf250
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