Homer - Finding Instance of Specific Motifs
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6 months ago
SilviaT • 0

Hello everyone!

I'm relatively new to bioinformatics, so sorry if this question sounds silly!

I have started to use Homer to find a specific motif in a list of genes.

The matter is: when I run findMotifsGenome.pl using -find <motif file> , I only a couple of genes from my list seem to contain the motif.

However, when I run annotatePeaks.pl with -m <motif> I get a massive excel table in which each gene seems to contain the motif multiple times.

From what I understood, the output should be the same in both cases... am I missing something? Thanks in advance to everyone who will help! :)

bioinformatics analysis homer motif genomic • 241 views
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