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gklambauer
/ cnv-cn.mops.R
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October 29, 2016 21:24
— forked from sonali-bioc/cnv-cn.mops.R
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| library(cn.mops) | |
| library(RUnit) | |
| tumor_gr <- getReadCountsFromBAM("tumorA.chr4.bam", | |
| refSeqName="chr4",WL=10000,mode="unpaired") | |
| normal_gr <- getReadCountsFromBAM("normalA.chr4.bam", | |
| refSeqName="chr4",WL=10000,mode="unpaired") | |
| # We need a special normalization because the tumor has made large CNVs | |
| X <- tumor_gr |