diff --git a/R/exomePreQC.R b/R/exomePreQC.R new file mode 100644 index 000000000..536020d2b --- /dev/null +++ b/R/exomePreQC.R @@ -0,0 +1,10 @@ +data <- read.table('GoT2D_exomes_batch_005.tsv',header=T) + +fingerprint_lods = list() +for(i in 1:nrow(data)) { + fingerprint_lods[[as.character(data$sample[i])]] <- eval(parse(text=data$FINGERPRINT_LODS[i])) +} + +fingerprint_lod_order = order(unlist(lapply(fingerprint_lods,median),use.names=F)) + +boxplot(fingerprint_lods[fingerprint_lod_order],las=3,main='Fingerprint LOD Scores By Sample',xlab='Sample',ylab='LOD Score Distribution',cex.axis=0.65)