Wondering about HOMER output, in the knownReasuts.txt it gives you the number of target sequences with the enriched motif. What is the best way to establish the exact target sequences in the BED file with that motif? Thank you
I have the same concern, did you figure it out.
I am trying to use "Finding Instance of Specific Motifs" http://homer.ucsd.edu/homer/ngs/peakMotifs.html, but the results do not like what I am expected. Because the number of peaks/targets is not same as the number "knownResults.txt".
I also have the same problem. Did you figure it out?
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