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updated 7.0 years ago by
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written 7.0 years ago by
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Answer: ANOVA like approach of edgeR
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You could try the followings:
> design <- model.matrix(~ 0 + group)
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Answer: Identical samples after deseq2 batch effect removal
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maripane
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Thanks Michael, so is there a way to work around this issue?
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Comment: CleanUpRNAseq with a GTF that is missing mitochondria annotation data
by
rcreed
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The updated version worked well on my data. Thank you!
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The two contrasts at the bottom are identical but for the sign of the logFC, so you should expect the same results (except for flipped sign…
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Michael Love
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Oh, i didn't realize there is another method in the mix here.
I would not necessarily trust this "batch correction" method, and suspect o…
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