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Old 09-03-2013, 12:21 AM   #6
flyingoyster
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Location: NJ

Join Date: Aug 2011
Posts: 10
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@Simon Anders, Yes, My data is paired-end. If HTseq-count counts read pairs, not reads, that makes sense. Thanks a lot!
@dpryan, I used Galaxy server, so not be able to choose options.

If I want to calculate the number of reads within genes, is it right to substract the number of no_feature reads from the total number of mapped reads? Thanks!
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