HOMER html output compared with homerMotifs.all.motifs are different
Entering edit mode
10 months ago
testtube ▴ 20

When executing HOMER for motif discovery (with options -fasta -noreopp -noknown), 2 of the main files it outputs are homerResults.html and homerMotifs.all.motifs describing the results. I was expecting the results described in these 2 files to be identical, but the file homerMotifs.all.motifs often has more motifs than the html file. I cannot figure out if it's because a threshold is used and the html is a "filtered" file. Some motifs that are present in the all.motifs file are absent from the html file despite having better p-value and %of target ratio then others that are kept and shown. What explains this difference?

HOMER motif • 316 views

Login before adding your answer.

Traffic: 2240 users visited in the last hour
Help About
Access RSS

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6