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Question: RNA-seq differential analysis for continuous phenotypes
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gravatar for anpham
12 weeks ago by
anpham0
anpham0 wrote:

I would like to do a genome-wide differential expression analysis for a continuous phenotype using counts from RNA-seq (raw counts from STAR alignment). Normally I'd use DESeq2 for the analysis and not having to do normalization. However, my understanding is that DESeq2 only models categorical phenotypes. What would software packages would you recommend for normalization of the raw count data and differential analysis for continuous phenotypes?  Thanks very much for your input.  

ADD COMMENTlink modified 12 weeks ago by Michael Love14k • written 12 weeks ago by anpham0
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gravatar for Michael Love
12 weeks ago by
Michael Love14k
United States
Michael Love14k wrote:

See the FAQ about continuous variables in the DESeq2 vignette.

ADD COMMENTlink written 12 weeks ago by Michael Love14k
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