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Answer: DiffBind
by
Rory Stark
★
3.8k
I'll answer the second question first. You should not accessing the `$binding` matrix directly -- the chromosome names are factor numbers,…
Comment: How to download the ChAMP dependency ChAMPdata
by
shepherl
2.6k
You could try increasing the timeout limit for downloading files. I increased mine in a `.Rprofile` script so its persistent in all sessio…
Comment: DiffBind reporting error
by
Rory Stark
★
3.8k
If you could give me access to your `dbind_de` object, I can have a look at what is going on. it would help to see the sequence of calls yo…
Comment: limma - removing samples?
by
RMP87
•
0
Thank you very much for the explanation. Making it more precise. Could I analyze and normalize all samples from a dataset even though I had…
Comment: DESeq2, why are the signs of EDASeq offsets flipped compared to CQN ?
by
Saulius
•
0
Yes - I think you are right once more. Thanks for taking so much time to look into this.
Size factors come in twice in the code of `cqn`: …
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