Mercurial > repos > morinlab > package_maf2tdm_1_0

annotate rscript2.R @ 3:3f412e6d2f9b draft

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author morinlab
date Wed, 30 Nov 2016 18:46:16 -0500
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3f412e6d2f9b Uploaded
morinlab
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1 maf <- read.delim("./output", header=T, na.strings=c(""," ","NA"))
3f412e6d2f9b Uploaded
morinlab
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2 colnames(maf) = sapply(colnames(maf), tolower)
3f412e6d2f9b Uploaded
morinlab
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3 final <- maf[!(is.na(maf$sift)) | !(is.na(maf$polyphen)),]
3f412e6d2f9b Uploaded
morinlab
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4 write.table(final, sep = '\t', quote = FALSE, row.names = FALSE, col.names = TRUE)