The output of topTags has that information top = topTags(d, n = 500) top$table has a adj.P.Val column
----- Original Message ----- From: "Sara Hanson" <sarahans...@gmail.com> To: bioc-sig-sequencing@r-project.org Sent: Thursday, June 30, 2011 12:22:44 PM Subject: [Bioc-sig-seq] Adjusted p values in edgeR I am analyzing differential expression with next gen sequencing data. I have successfully gotten an output from the program containing the p-values calculated for each gene, but I am not sure how to output the p-values adjusted using the FDR method. From the edgeR manual, I can get a summary of the number of genes that are significantly differentially expressed based on adjusted p-values, but I do not know how to output the actual list of adjusted p-values for my dataset. Can anyone help me with this? I apologize if this question is naive, but I am a novice with R. Thanks in advance! [[alternative HTML version deleted]] _______________________________________________ Bioc-sig-sequencing mailing list Bioc-sig-sequencing@r-project.org https://stat.ethz.ch/mailman/listinfo/bioc-sig-sequencing _______________________________________________ Bioc-sig-sequencing mailing list Bioc-sig-sequencing@r-project.org https://stat.ethz.ch/mailman/listinfo/bioc-sig-sequencing