HMMER¶

HMMER provides tools for making probabilistic models of protein and DNA sequence domain families. The hmmer bundle packages version 3.3.2.

UFS HPC Usage Example¶

The following command can be executed in the terminal to load the bundle:

1	`module load hmmer`

The HMMER utilities can be run as shown below:

hmmbuild
hmmalign
hmmsearch
hmmscan
hmmpress
phmmer
jackhmmer
nhmmer
nhmmscan
hmmfetch
hmmstat
hmmemit
hmmlogo
hmmconvert
hmmpgmd
hmmpgmd_shard
makehmmerdb
hmmsim
alimask

The hmmer_shell commmand can be used to access a shell in the hmmer bundle.

1	`hmmer_shell`

Performance Notes¶

No performance notes available

Recommended resources per session¶

No recommended resources available

Benchmarks¶

No benchmarks available.

UFS HPC Community Guides and Tutorials¶

No community guides available.

Official site and documentation¶

Licensing Information¶

HMMER is licensed under the BSD three clause license.

Primary citation¶

External Guides and Resources¶

If you know of a guide/tutorial that you have found useful, please help us share it by contacting the HPC staff at hpc@ufs.ac.za