I did not understand what do you mean by adding the batch in DESeq. Could you please explain more? Thanks very much.
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Dear all,
I am going to use RNA seq data from other groups that their count read tables are available.
However, I have no idea how to do batch effect. I am not a bioinformatician but I can use R for DESeq analysis and enrichment analysis. I would appreciate if you explain it simple that I can follow.
Thanks very much for your help.
Just add batch to the design in DESeq.
But if your batch is confounded with an experimental condition, there is no magic trick to fix that.
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