bedgraph file format in IGV: good for observing CNV ?

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6.1 years ago

Pin.Bioinf ▴ 340

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 • 1.6k views

ADD COMMENT • link 6.1 years ago by Pin.Bioinf ▴ 340

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How to add images to a Biostars post

ADD REPLY • link 6.1 years ago by WouterDeCoster 47k

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

ADD REPLY • link 6.1 years ago by Pierre Lindenbaum 164k

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

ADD REPLY • link 6.1 years ago by Pin.Bioinf ▴ 340

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