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6.3 years ago
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Answer: Data input for aracne2regulon function in viper package
by
reef103
•
0
Hi @luna_p , I'm sorry I didn;t see this before. The error might be due to a lack of match between the genes in the network (regulators and…
Comment: deseq2 normalized data with heatmap
by
Kevin Blighe
3.1k
Hey Ian, specifically just for the heatmap and/or the clustering, we can additionally scale and center the `vsd` or `rld` data.
The `scale…
Answer: Difference in mixed test for fry vs mroast
by
Gordon Smyth
43k
That's a fair question and you're right that the fry/mroast help page doesn't give currently enough information about the mixed p-values.
…
Comment: deseq2 normalized data with heatmap
by
Ian
•
0
Hey @kevin , Thanks for the helpful posts!
I noticed in your link to this heatmap analysis, you used scale() and not vst(). However, in yo…
Comment: lmFit, continuous exposure, adjustment covariates
by
AyHi
•
0
Dear Gordon,
Thank you so much for your reply. It worked well!
I just changed y to t because the protein values were included in dat in my…
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