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pH-dependence
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PDRA in Computational Biophysics and Cancer Research, University of Manchester, UK
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pH-dependence
3.3 years ago
jim.warwicker
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Comment: Differential Expression Genes as Independent Variables
by
Gordon Smyth
52k
Does not allow mixed models. And is for a different purpose to what your aims seem to be: it's purely for prediction rather than for testin…
Comment: Differential Expression Genes as Independent Variables
by
abadgerw
• 0
Thanks! I was thinking about this but do not believe glmnet allows for regularized mixed models unless I am mistaken?
Comment: lfcShrink and alpha value
by
cropero
• 0
Thank you for your fast answer, I have everything clear now
Answer: DESeq2 - Comparing Comparisons
by
James W. MacDonald
67k
Assuming that WC in your equation #2 is different in KD1 subunit1_vs_WC and SCR subunit1_vs_WC, this is just an interaction, and the easies…
Comment: Differential Expression Genes as Independent Variables
by
James W. MacDonald
67k
An alternative to that is to use the `glmnet` package to fit a regularized regression using all proteins at once.
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A: How to bin a GRanges to small bins
C: How to bin a GRanges to small bins
C: How to bin a GRanges to small bins
A: deseq2 filter the low counts
A: deseq2 filter the low counts
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