Mercurial > repos > yufei-luo > differential_expression_analysis_pipeline_for_rnaseq_data
diff deseq/differential_expression_analysis_pipeline_for_rnaseq_data-a03838a6eb54/DiffExpAnal/DESeqTools/exportComplete.R @ 10:6e573fd3c41b draft
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author | yufei-luo |
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date | Mon, 13 May 2013 10:06:30 -0400 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/deseq/differential_expression_analysis_pipeline_for_rnaseq_data-a03838a6eb54/DiffExpAnal/DESeqTools/exportComplete.R Mon May 13 10:06:30 2013 -0400 @@ -0,0 +1,20 @@ +# exportComplete +# export complete data and results + +# input : counts res, target +# output : complete data and xls file (in text format) + +# created Feb 14th, 2012 +# modified March 9th, 2012 (order of cond1 and cond2) +# Marie-Anges Dillies + +exportComplete <- function( counts, res, target, adjMethod, cond1, cond2, OUT_completeName, out = T ){ + + complete <- data.frame( res$id, counts, res[,3:ncol(res)] ) + colnames(complete) <- c( "id", as.character(target$label), cond2, cond1, "FC", "log2FC", "rawp", + paste("adjp",adjMethod,sep="") ) + + if (out) + write.table( complete, file=OUT_completeName, sep="\t", row.names=F ) + return( complete ) +}