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updated 7 days ago by
Gordon Smyth
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written 11 days ago by
Lluís Revilla Sancho
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Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
Gordon Smyth
50k
You seem to have the misunderstanding that you can change the design matrix but keep all the other code unchanged. The contrasts are comput…
Answer: package goseq seems to be not available on the latest version of R
by
Gordon Smyth
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It is true that goseq isn't available for Bioc 3.19. That is because goseq depends on txbmaker, which is itself not yet available for Bioc…
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
James W. MacDonald
65k
This part:
```
design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa)
colnames(design_intercept) <- c("AltSHP_LA","Al…
Comment: CombineArrays for EPIC and EPIC V2
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Kim
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Thank you Tim, this is a great help in getting me started!
Comment: Too many significant genes when integrating gtex and tcga
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Michael Love
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Yes, this was one of the aspects we highlighted in the 2014 paper, and it's also in the workflow. Check these places first.
Also take a st…
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