HMMER
Description
HMMER is used for searching sequence databases for homologs of protein sequences, and for making protein sequence alignments. It implements methods using probabilistic models called profile hidden Markov models (profile HMMs).
License
Usage
Upcoming modulesystem change alert!
Due to large number of applications and their versions it is not practical to keep them explicitly listed at our wiki pages. Therefore an upgrade of modulefiles is underway. A feature of this upgrade will be the existence of default module for every application. This default choice does not need version number and it will load some (usually latest) version.
You can test the new version now by adding a line
source /cvmfs/software.metacentrum.cz/modulefiles/5.1.0/loadmodules
to your script before loading a module. Then, you can list all versions of hmmer and load default version of hmmer as
module avail hmmer/ # list available modules module load hmmer # load (default) module
If you wish to keep up to the current system, it is still possible. Simply list all modules by
module avail hmmer
and choose explicit version you want to use.
Documentation
Documentation is available in manual pages or on http://eddylab.org/software/hmmer/Userguide.pdf.