Question: Diffbind for regressing multiple confounding variables (blocking factors)
0
gravatar for melnuesch
5 weeks ago by
melnuesch10
melnuesch10 wrote:

I was wondering how Diffbind deals with the problem of using multiple blocking factors (let's say, age, gender and postmortem delay). If there is a (small) limit of how many of those I could correct at the same time. Ideally, two or three should be possible (for example, those three I named, in sequencing data from tissue, are very important and almost always are playing a role in the biological interpretation).

The cases I have seen in the tutorial are for when you only have one blocking factor. In the case that I have data for two or three variables at the same time, what's the best way of doing it? Should I correct this manually myself somehow, or Diffbind provides a way? Thank you very much for your time.

ADD COMMENTlink written 5 weeks ago by melnuesch10
Answer: C: Diffbind for regressing multiple confounding variables (blocking factors)
1
gravatar for Kevin Blighe
5 weeks ago by
Kevin Blighe390
Kevin Blighe390 wrote:

Hey Mel, there was a previous answer here: https://support.bioconductor.org/p/101212/#101422

However, it seems that the functionality is not properly implemented. You may try the suggestion to use DESeq2, or csaw.

Also to link to your former question: https://support.bioconductor.org/p/125858/

ADD COMMENTlink modified 5 weeks ago • written 5 weeks ago by Kevin Blighe390
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