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Comment: Quantile Normalization after rma or not? by Yang Shi • 0
Thanks you so much sir! But I'm still confused with the boxplot showing here. Why oligo::rma could not get the plot like limma::normalizeBe…
Answer: how to understand cpm=1 and how filterByExpr works? by gowthamee • 0
I found the following two articles very helpful in explaining the functions "cpm" and "filterByExpr" Article#1: From reads to genes to pat…
Comment: different results in DESeq2 when comparing groups in two ways by zohreh.fazelan • 0
Thank you for your response. But I have few comparisons in which there are more significantly expressed genes in the socond way compared to…
Comment: lmFit, continuous exposure, adjustment covariates by Gordon Smyth 45k
Your code `t(dat[43:ncol(dat)]` is not even syntactically correct. It could not possibly run in R. You need to create an expression matrix…
Comment: Handling of missing values in limma by Gordon Smyth 45k
limma uses all the observations. There's nothing complicated about it. limma does not remove any persons from the analysis. I did not tel…
Votes
A: redundant probe sets in Affymetrix HG-U219
Answer: Quantile Normalization after rma or not?
Answer: Quantile Normalization after rma or not?
Answer: Using featureCounts and downloading Rsubread
Answer: different results in DESeq2 when comparing groups in two ways
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