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Replies
Comment: Is there a way to do DEG analysis across two batches sharing one sample only?
by
kahunroleh
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0
Yes, you can perform DEG analysis across two batches with one shared sample by using batch correction methods like ComBat or limma. These t…
Comment: displaying the differential expression with deseq2 over 4X2 samples with the in
by
Martijn
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thanks James, but if I do pairwise analyses per subject, I get the impression that I only get the intercepts per gene. Do you mean regardin…
Comment: plyranges: find exact GRanges match keeping metadata columns
by
alexis.weinreb
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Thank you, this does clarify the available options.
Answer: displaying the differential expression with deseq2 over 4X2 samples with the in
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James W. MacDonald
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If you have paired data you should block on subject, which is algebraically the same as fitting a model on the difference between treated a…
Answer: How to compare expression levels of genes between scRNAseq and bulkRNAseq?
by
jodan
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Your approach sounds solid! You might also consider plotting a scatter plot comparing log2 fold changes from both datasets to identify gene…
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