Mercurial > repos > yufei-luo > differential_expression_analysis_pipeline_for_rnaseq_data
annotate deseq/differential_expression_analysis_pipeline_for_rnaseq_data-a03838a6eb54/DiffExpAnal/DESeqTools/raw2counts.R @ 10:6e573fd3c41b draft
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| author | yufei-luo |
|---|---|
| date | Mon, 13 May 2013 10:06:30 -0400 |
| parents | |
| children |
| rev | line source |
|---|---|
| 10 | 1 # raw2counts |
| 2 # extract counts only from rawCounts | |
| 3 # and add rownames to counts | |
| 4 | |
| 5 # input : rawCounts | |
| 6 # output : counts | |
| 7 | |
| 8 # created Feb 6th, 2012 | |
| 9 # modified April 12, 2012 | |
| 10 # Marie-Agnes Dillies | |
| 11 | |
| 12 | |
| 13 raw2counts <- function( rawCounts, annot=1 ){ | |
| 14 | |
| 15 ex <- 1:annot | |
| 16 counts <- as.matrix( rawCounts[,-ex] ) | |
| 17 rownames(counts) <- rawCounts[,1] | |
| 18 infoCounts <- rawCounts[,ex] | |
| 19 return( list("counts"=counts, "infoCounts"= infoCounts) ) | |
| 20 } |