| description | CLUSTAL-OMEGA is a general purpose multiple sequence alignment program for proteins. |
| version | 1.0.2 |
| homepage | http://www.clustal.org/ |
| commands | clustalo |
| manpages | |
| documentation | |
| interfaces |
| description | ClustalW is a general purpose multiple alignment program for DNA or proteins. |
| version | 2.0.12 |
| homepage | http://www.clustal.org/ |
| commands | clustalw |
| manpages | clustalw |
| documentation | |
| interfaces | clustalw-multialign clustalw-profile clustalw-sequence |
| description | ClustalX is a new windows interface for the ClustalW multiple sequence alignment program. |
| version | 2.0.12 |
| homepage | http://www.clustal.org/ |
| commands | clustalx |
| manpages | |
| documentation | |
| interfaces |
| description | ComAlign is a program, that given a number of sequences, generates a number of heuristic alignments and combines these best possible. |
| version | |
| homepage | http://www.daimi.au.dk/~ocaprani/ComAlign/ComAlign.html |
| commands | ProfAlign DNAgen ComAlign |
| manpages | |
| documentation | |
| interfaces | comalign |
| description | Divide-and-Conquer Multiple Sequence Alignment (DCA) is a program for producing fast, high quality simultaneous multiple sequence alignments of amino acid, RNA, or DNA sequences. |
| version | 1.1 |
| homepage | http://bibiserv.techfak.uni-bielefeld.de/dca/ |
| commands | dca |
| manpages | dca |
| documentation | |
| interfaces | dca |
| description | DIALIGN is a software program for multiple alignment. |
| version | 2.2.1 |
| homepage | http://dialign.gobics.de/ |
| commands | dialign |
| manpages | dialign |
| documentation | |
| interfaces | dialign |
| description | Multiple alignment program for amino acid or nucleotide sequences |
| version | 6.849 |
| homepage | http://mafft.cbrc.jp/alignment/software/ |
| commands | mafft, nwnsi, nwns, mafft-xinsi, mafft-qinsi, mafft-profile, mafft-nwnsi mafft-nwns, mafft-linsi, mafft-ginsi, mafft-fftnsi, mafft-fftns, mafft-einsi mafft-distance, linsi, ginsi, fftnsi, fftns, einsi |
| manpages | mafft.1 mafft-homologs.1 |
| documentation | |
| interfaces |
| description | MSA is a program to do multiple sequence alignment under the sum-of-pairs criterion. |
| version | 2.1 |
| homepage | http://www.ncbi.nlm.nih.gov/CBBresearch/Schaffer/msa.html |
| commands | msa |
| manpages | msa |
| documentation | |
| interfaces | msa |
| description | MSAPROBS is a new and practial protein multiple sequence alignmentalgorithm based on pair hidden markov model and partition functionposterrior probabilities. |
| version | 0.9.4 |
| homepage | http://sourceforge.net/projects/msaprobs/ |
| commands | msaprobs |
| manpages | |
| documentation | |
| interfaces |
| description | This software will allow you to align simultaneously several biological sequences. |
| version | 5.4.1 |
| homepage | https://www-lgc.toulouse.inra.fr/internet/index.php/Tools/MultAlin.html |
| commands | multalin |
| manpages | |
| documentation | |
| interfaces |
| description | Multiple alignment software for protein and nucleotide sequences. |
| version | 3.8.31 |
| homepage | http://www.drive5.com/muscle/ |
| commands | muscle |
| manpages | |
| documentation | |
| interfaces | muscle |
| description | Pattern-Induced Multi-sequence Alignment program. Performs a multi-sequence alignment of a set of (presumably related) sequences using an extension of our covering pattern construction algorithm. |
| version | 1.40 |
| homepage | |
| commands | pima print-pima |
| manpages | pima print-pima |
| documentation |
http://bioweb2.pasteur.fr/docs/pima/pima.help |
| interfaces | pima |
| description | Aligns and finds the phylogeny at the same time for a set of homologous proteins or DNA/RNA sequences. |
| version | |
| homepage | |
| commands | treealign |
| manpages | treealign |
| documentation | |
| interfaces | treealign |
| description | T-Coffee is a multiple sequence alignment package. |
| version | 3.93 |
| homepage | http://www.tcoffee.org/Projects_home_page/t_coffee_home_page.html |
| commands | t_coffee |
| manpages | |
| documentation | |
| interfaces |