Deseq Table Of Contents

Question

[Rose Adele]

I have my RNA Seq data in a excell table, one column for the name of the gene, and two conditions columns containing the number of reads. What can I do to use this table in the DESeq? Thanks a lot for your help. Rose

Answer 1

[Curiosity]

Follow the manual www-huber.embl.de/users/anders/DESeq/ Every thing is there. It should be like this. You need to put an header. S1 is the number of reads in sample overlapping with Sox2 gene and vice versa. You can get the reads by using coverageBED command in BEDTools.

gene  S1  S2
Sox2  24  450