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Comment: Estimating Cell Counts for EPIC V2 array data
by
normawiedman059
•
0
0
[103] spam_2.9-1 doParallel_1.0.17 iterators_1.0.14
[106] foreach_1.5.2 beeswarm_0.4.0 tgp_2.4-20
[109] beanplot_1.3.1 fpc_2.2-9 dbscan_1…
Comment: Finding DEGs by using edgeR
by
Gordon Smyth
50k
Filtering (removing lowly expressed genes) is separate to normalization.
It isn't clear why not subsetting would cause any difficulty. It …
Comment: How to make DGEList and design matrix by edgeR package
by
prity6459
•
0
Thank you for your suggestion. Yes, I have made DGEList and design matrix in my script. But I was not entirely confident while making thos…
Comment: Finding DEGs by using edgeR
by
prity6459
•
0
Hello Gordon,
Thanks for your response. By normalization, I meant that I have already removed lowly expressed genes from my count matrix. …
Answer: FilterByExpr low counts with small sample size
by
Gordon Smyth
50k
It doesn't seem to me that there is necessarily any problem with the analysis.
You say that there are "too many low-reads" but actually th…
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