Hi all, Did you try both of them to see what is the difference between these two to do motif analysis with ChIP-seq results? Homer said:
Analyzing lists of genes with promoter motif analysis ( findMotifs.pl)
Analyzing genomic positions ( findMotifsGenome.pl)
After Peakcalling, I want to do motif analysis, so which one I can use?
If I get a peak, and I want to extract the sequence of that single peak and to see whether and how many certain motif in it, how I can do that? Can you give me some suggestion?
Thanks in advance!