Mercurial > repos > davidvanzessen > mutation_analysis

comparison sequence_overview.r @ 94:e39176ccddc8 draft

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author davidvanzessen
date Tue, 07 Jun 2016 08:39:08 -0400
parents b869a126e2c4
children 5ffbf40cdd4b
comparison
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93:53fb2948726e 94:e39176ccddc8
1 library(reshape2) 1 library(reshape2)
2 2
3 args <- commandArgs(trailingOnly = TRUE) 3 args <- commandArgs(trailingOnly = TRUE)
4 4
5 input.file = args[1] 5 input.file = args[1]
6 outputdir = args[2] 6 input.file = args[2]
7 gene.classes = unlist(strsplit(args[3], ",")) 7 outputdir = args[3]
8 hotspot.analysis.sum.file = args[4] 8 gene.classes = unlist(strsplit(args[4], ","))
9 hotspot.analysis.sum.file = args[5]
9 NToverview.file = paste(outputdir, "ntoverview.txt", sep="/") 10 NToverview.file = paste(outputdir, "ntoverview.txt", sep="/")
10 NTsum.file = paste(outputdir, "ntsum.txt", sep="/") 11 NTsum.file = paste(outputdir, "ntsum.txt", sep="/")
11 main.html = "index.html" 12 main.html = "index.html"
12 13
13 setwd(outputdir) 14 setwd(outputdir)