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Old 11-07-2011, 11:21 AM   #1
nguyendofx
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Location: CA

Join Date: May 2011
Posts: 31
Default GATK / DepthofCoverage

Hello All,

I've ran the GATK/DepthofCoverage. There are several result files. I have a problem to interpret the summary file. Does anyone has an idea what each column mean - and a math behind? I read http://www.broadinstitute.org/gsa/ga...ageWalker.html, have little clue.

sample_id total mean granular_third_quartile granular_median granular_first_quartile %_bases_above_10 %_bases_above_5 %_bases_above_8 %_bases_above_10 %_bases_above_15 %_bases_above_20 %_bases_above_50 %_bases_above_100
Homo_sapiens 753321115 12.13 19 11 5 57.9 76.9 65.8 57.9 38.7 23.0 0.8 0.0
Total 753321115 12.13 N/A N/A N/A


Thanks,
Ng
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