updated 5.8 years ago by
Ryan C. Thompson
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written 5.8 years ago by
Sara
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Comment: performing the differential binding in ChIP-seq
by
Bogdan
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640
I am asking the question because we have two sets of ChIP-seq data for a histone mark (lets' say H3K4me1) that were generated with :
<> an…
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
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