Hhsuite
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: cc-by-sa-3.0
License
Verified by
Debian: Andreas Tille <tille@debian.org>
Verified on
7 November 2014
Notes
License: gpl-3.0+
License
Verified by
Debian: Andreas Tille <tille@debian.org>
Verified on
7 November 2014
Notes
License: gpl-2.0+
Leaders and contributors
| Contact(s) | Role |
|---|---|
| Andreas Hauser | contact |
Resources and communication
| Audience | Resource type | URI |
|---|---|---|
| Download | ftp://toolkit.lmb.uni-muenchen.de/HH-suite/releases/hhsuite-([0-9.]+)\.tar\.gz | |
| Debian (Ref) | https://tracker.debian.org/pkg/hhsuite |
Software prerequisites
Permission is granted to copy, distribute and/or modify this document under the terms of the GNU Free Documentation License, Version 1.3 or any later version published by the Free Software Foundation; with no Invariant Sections, no Front-Cover Texts, and no Back-Cover Texts. A copy of the license is included in the page “GNU Free Documentation License”.
The copyright and license notices on this page only apply to the text on this page. Any software or copyright-licenses or other similar notices described in this text has its own copyright notice and license, which can usually be found in the distribution or license text itself.