[BioC] counts from HTSeq vs DEXSeq

[Akula, Nirmala (NIH/NIMH) [C]]

Thanks Simon for the link. It does answer my question.

FYI, I am using HTSeq.scripts.count in HTSeq. 

Regards,
Nirmala

-----Original Message-----
From: Simon Anders [mailto:anders at embl.de] 
Sent: Thursday, July 19, 2012 3:52 PM
To: bioconductor at r-project.org
Subject: Re: [BioC] counts from HTSeq vs DEXSeq

Hi

> I used HTSeq to count the reads in RNA-seq data. When I used these 
> counts in DEXSeq and execute the function geneCountTable, the counts 
> generated from geneCountTable are different compared to the original 
> HTSeq counts. Did anyone observe this discrepancy?

I'm not sure if In understand your question. Which HTSeq script have you used?

See also this thread, which might answer your question:

http://seqanswers.com/forums/showthread.php?t=15637

   Simon

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