Entering edit mode
7.6 years ago
peri.tobias
▴
10
I am using HMMER v3.1 for nucleotide Hidden Markov Model searches.
What I can't find in the manual is whether the hmm (I am building species-specific domain specific hmm) used to search a database looks at the plus and minus strand of the sequences in the database. To clarify - when running a BLAST the output gives matches against both forward and reverse. I am not sure if this occurs with HMMER. Can anyone help with this?
