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Comment: Estimating Cell Counts for EPIC V2 array data
by
normawiedman059
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0
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[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
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Gordon Smyth
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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
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prity6459
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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
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prity6459
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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
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Gordon Smyth
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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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