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Old 08-19-2010, 03:04 PM   #1
foxyg
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Default GATK depthofcoverage

Hi guys,

I tried depthofcoverage, on my aligned bam file. I got sample_cumulative_coverage_proportions

Does anyknow know how to interpret this file?

Thanks
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Old 08-21-2010, 10:22 AM   #2
definitelyNotEricBanks
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Based on their wiki: http://www.broadinstitute.org/gsa/wi..._Coverage_v3.0

this is probably:

"A matrix of proportions of the number of bases that were covered to at least X depth, in at least Y groups (e.g. proportion of loci with ≥18x coverage for ≥15 libraries)"

with samples in place of libraries, in your case. Also, they have a help forum too:

http://getsatisfaction.com/gsa
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