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Comment: How do I fix an odd voom plot in a combined dataset?
by
1sunmic2
•
0
Thanks for responding! I did change the code slightly:
dge1 <- DGEList(counts = combined_data_counts)
keep <- rowSums(cpm(dge1)…
Comment: Incorporating Salmon offset matrix into Wilcoxon DEG analysis
by
Andre
•
0
The estimateGLMRobustDisp() function seems to have an effect on glmQLFit(), even in edgeR 4 (4.4.1).
If I use estimateGLMRobustDisp(), like…
Comment: Incorporating Salmon offset matrix into Wilcoxon DEG analysis
by
Gordon Smyth
52k
Here, estimateGLMRobustDisp() was used just to get the diagnostic BCV plot by plotBCV(y). The robust NB dispersions were not used for the D…
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Michael Love
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I have to reserve my time on the support site for software related questions. I recommend working with a local statistician or someone fami…
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Michael Love
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I would probably just do the M vs M analysis. You could instead include a term for sex and have a model with all 45 samples, but the M vs M…
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