Hhsuite

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Hhsuite

http://toolkit.genzentrum.lmu.de/sections/search
sensitive protein sequence searching based on HMM-HMM alignment

HH-suite is an ??open-source?? software package for sensitive protein sequence searching based on the pairwise alignment of hidden Markov models (HMMs).

This package contains HHsearch and HHblits among other programs and utilities.

HHsearch takes as input a multiple sequence alignment (MSA) or profile HMM and searches a database of HMMs (e.g. PDB, Pfam, or InterPro) for homologous proteins. HHsearch is often used for protein structure prediction to detect homologous templates and to build highly accurate query-template pairwise alignments for homology modeling.

HHblits can build high-quality MSAs starting from single sequences or from MSAs. It transforms these into a query HMM and, using an iterative search strategy, adds significantly similar sequences from the previous search to the updated query HMM for the next search iteration. Compared to PSI-BLAST, HHblits is faster, up to twice as sensitive and produces more accurate alignments.





Licensing

License

Verified by

Verified on

Notes

Verified by

Debian: Andreas Tille <tille@debian.org>

Verified on

7 November 2014

Notes

License: gpl-3.0+

License

Other

Verified by

Debian: Andreas Tille <tille@debian.org>

Verified on

7 November 2014

Notes

License: gpl-2.0+

Verified by

Debian: Andreas Tille <tille@debian.org>

Verified on

7 November 2014

Notes

License: cc-by-sa-3.0




Leaders and contributors

Contact(s)Role
Andreas Hauser contact


Resources and communication

AudienceResource typeURI
Downloadftp://toolkit.lmb.uni-muenchen.de/HH-suite/releases/hhsuite-([0-9.]+)\.tar\.gz
Debian (Ref)https://tracker.debian.org/pkg/hhsuite


Software prerequisites

This entry (in part or in whole) was last reviewed on 20 February 2018.



Entry




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Date 2015-07-17
Source Debian
Source link http://packages.debian.org/sid/hhsuite

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