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ICHEC Software

Information about software packages installed on the ICHEC systems.

ClustalW

Versions Installed

Stokes: 2.0.12

Description

ClustalW is a general purpose multiple sequence alignment program for DNA or proteins. It produces biologically meaningful multiple sequence alignments of divergent sequences. It calculates the best match for the selected sequences, and lines them up so that the identities, similarities and differences can be seen. Evolutionary relationships can be seen via viewing Cladograms or Phylograms.

License

The copyright for ClustalW and ClustalX is held by Des Higgins, Julie Thompson and Toby Gibson.

The binaries and source code are made available and can be distributed subject to the following conditions:

  • Users are free to redistribute ClustalW or ClustalX in it's unmodified form as long as it is not for commercial gain.
  • Anyone wishing to redistribute Clustal commercially should contact Toby Gibson at gibson@embl.de

If users make changes/have ideas that they believe would be useful to the broader research community they can send their suggestions to the clustal development team at clustalw@ucd.ie where they will be considered for inclusion in future releases.

Benchmarks

N/A.

Additional Notes

To use ClustalW load the relevant environment module:

module load clustalw

ClustalW is a serial program so it may be used in conjunction with the taskfarm utility for batch jobs. Further information can be obtained from ftp://ftp.ebi.ac.uk/pub/software/clustalw2/clustalw_help.txt

How to cite ClustalW:

Larkin M.A., Blackshields G., Brown N.P., Chenna R., McGettigan P.A., McWilliam H., Valentin F., Wallace I.M., Wilm A., Lopez R., Thompson J.D., Gibson T.J. and Higgins D.G. (2007)
ClustalW and ClustalX version 2.
Bioinformatics 23(21): 2947-2948.

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