updated 4.6 years ago by
Jake Wagner
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310
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written 4.6 years ago by
stefankolling+github
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Comment: ANOVA like approach of edgeR
by
Yunshun Chen
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870
If you do it this way, the dispersion estimates would be much higher than they should (as the cell type difference is not accounted for in …
Comment: ANOVA like approach of edgeR
by
SamGG
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350
Simply remove the cell type from the model.
design <- model.matrix(~targets$Status)
Answer: ANOVA like approach of edgeR
by
Yunshun Chen
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870
You could try the followings:
> design <- model.matrix(~ 0 + group)
> contrast <- makeContrasts(PvsL = 0.5*(L.pregnant + B.pregnan…
Answer: Identical samples after deseq2 batch effect removal
by
maripane
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0
Thanks Michael, so is there a way to work around this issue?
Can I somehow make sure I can remove this batch effects without overcorrecti…
Comment: CleanUpRNAseq with a GTF that is missing mitochondria annotation data
by
rcreed
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0
The updated version worked well on my data. Thank you!
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