I have been using homer's
findMotifsGenome.pl, but with my new version (v4.9.1) of
homer I don't get
.motif files in the
knownResults folder. I do get them in the
homerResults (de novo) folder, though. With my previous version of
homer I did get them and used them to find which peaks are in which motif. Which is what I would like to do
Does anyone know why there are no
.motif files? I have only
.svg files. I have seen that for the
.motif files are concatenated already into a file called
homerMotifs.all.motifs, but no such file for
PS. I tried to call Chuck for help, but he was not answering his phone...
PS2. I will ask this question on Biostars to hopefully get more response than here.