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Comment: performing the differential binding in ChIP-seq
by
Bogdan
▴
640
Thank you. Yes, DiffBind might be a good choice shall we have replicates per sample.
Another choice is MA-norm2. Any other well-tested sug…
Comment: Error using read.ilmn and neqc
by
Gordon Smyth
45k
I edited the title of your question to be more specific.
Answer: Using limma to read Illumina HT-12 v4 data
by
Gordon Smyth
45k
It seems clear that you haven't exported the correct intensity data from GenomeStudio, and I think you recognize that yourself in your ques…
Answer: performing the differential binding in ChIP-seq
by
etiennedanis
•
0
DiffBind
https://bioconductor.org/packages/release/bioc/html/DiffBind.html
Comment: Transcript-level differential expression using DESeq2
by
Michael Love
36k
Did you see the part of the vignette where we talk about this?
https://bioconductor.org/packages/release/bioc/vignettes/fishpond/inst/doc/…
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