Question: Should I subsample an over-clustered sample for DESeq2?
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gravatar for russell.stewart.j
3 months ago by
russell.stewart.j0 wrote:

We are performing a small RNA seq experiment and had one sample over cluster by about 5-fold compared to the rest of the libraries. With the intention of using DESeq2 after processing the data, would you suggest subsampling to match the rest of the sample depths, or will DESeq2 handle the scaling fine to keep the sample from becoming an outlier? I couldn't find this question answered elsewhere, but maybe my search terms were lacking. Thanks in advance!

deseq2 • 75 views
ADD COMMENTlink modified 3 months ago by Michael Love25k • written 3 months ago by russell.stewart.j0
Answer: Should I subsample an over-clustered sample for DESeq2?
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gravatar for Michael Love
3 months ago by
Michael Love25k
United States
Michael Love25k wrote:

Basically, no, you shouldn’t subsample and there’s nothing special you need to do here.

ADD COMMENTlink written 3 months ago by Michael Love25k
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