updated 6.9 years ago by
shepherl
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written 6.9 years ago by
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updated 9.4 years ago by
James W. MacDonald
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written 9.4 years ago by
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Answer: When to use edgeR or limma
by
James W. MacDonald
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I would use edgeR's quasi-likelihood model for any analysis with a smaller number of observations (like 3 vs 3 or similar), but if you have…
Answer: limpa-blank normalization and Spectronaut's PTM stoichiometry
by
Gordon Smyth
53k
limpa reads standard feature-level output from Spectronaut. You do not need to make any changes to the output before reading it into limpa.…
Comment: Question about the filterByExpr function inputs in edgeR
by
mohammedtoufiq91
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10
@gordonsmyth Noted, thank you very much.
Comment: Question about the filterByExpr function inputs in edgeR
by
Gordon Smyth
53k
Regarding edgeR v4 filtering, I didn't mention anything about a minimum count of 10 but rather said "a positive count". So a minimalistic f…
Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry
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JKim
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0
Hi Emily,
He left some comments regarding normalization. Here is the relevant quote:
> The EList object produced by dpcQuant(), containi…
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