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Comment: QSEA- Extraction of Normalized methylation across the samples
by
celiaruby127
•
0
If you need specific counts for defined regions or windows, you may want to explore other functions or slots within the QSEA object that co…
Comment: How to conduct maSigPro analysis with only one condition?
by
Jay
•
0
Yes, you are right! Great thanks!
BTW, according to your working experience on maSigPro, do you think it is suitable for differential analy…
Comment: dmpFinder for other objects
by
James W. MacDonald
67k
You are better off using M-values instead of beta values because you are fitting a conventional linear regression, in which case it's bette…
Comment: dmpFinder for other objects
by
neyousha
•
0
Thank you very much James, would you mind explaining why m-values instead of beta values? I have only beta_values available at this point.
Answer: Removing Effect of Covariate in Only a Subset of Samples in a Model Containing A
by
James W. MacDonald
67k
Do you end up with a column of all zeros when you include menopausal status as a factor? Also, please note that `voomLmFit` is the preferre…
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