HMMER 3.2.1-foss-2018b

Deprecated: Use of this version of HMMER is deprecated. More information on our Applications Support and Retention Policy.

There is a newer version of HMMER

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). Compared to BLAST, FASTA, and other sequence alignment and database search tools based on older scoring methodology, HMMER aims to be significantly more accurate and more able to detect remote homologs because of the strength of its underlying mathematical models. In the past, this strength came at significant computational expense, but in the new HMMER3 project, HMMER is now essentially as fast as BLAST.

Accessing HMMER 3.2.1-foss-2018b

To load the module for HMMER 3.2.1-foss-2018b please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load HMMER/3.2.1-foss-2018b

BEAR Apps Version

2018b

Architectures

EL8-cascadelakeEL8-haswellUbuntu20.04-haswell

The listed architectures consist of two part: OS-CPU.

  • BlueBEAR: The OS used on BlueBEAR is represented by EL and there are several different processor (CPU) types available on BlueBEAR. More information about the processor types on BlueBEAR is available on the BlueBEAR Job Submission page.
  • BEAR and CaStLeS Cloud VMs: These VMs can have one of two OSes. Those with access to a BEAR Cloud or CaStLeS VM should check that the listed architectures for an application include the OS of VM being used. The VMs, irrespective of OS, will use the haswell CPU type.

More Information

For more information visit the HMMER website.

Dependencies

This version of HMMER has a direct dependency on: foss/2018b

Required By

This version of HMMER is a direct dependent of: BUSCO/3.0.2-foss-2018b-Python-2.7.15 PfamScan/20170301-foss-2018b-Perl-5.28.0

Other Versions

These versions of HMMER are available on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs). These will be retained in accordance with our Applications Support and Retention Policy.

Last modified on 3rd June 2019