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Old 06-20-2013, 08:42 AM   #1
Junior Member
Location: Spain

Join Date: Jun 2013
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Default Coverage in given regions

I'm trying to plot the coverage (bedgraph) in certain regions (bed). Is there an easy way to do so in R?

Thanks in advance,

PhD student
AndreaIzq is offline   Reply With Quote
Old 06-20-2013, 01:27 PM   #2
Location: New York

Join Date: Dec 2008
Posts: 44

Hi Andrea, an easy way to draw coverage for your NGS samples is to use ngs.plot. It can accept a customized BED file or you can use the pre-compiled regions in its database. It is very easy to install and use.

The input format for ngs.plot is BAM, not bedgraph. However, I would assume BAM files are generally available for any NGS samples out there.
asiangg is offline   Reply With Quote

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