# Jalview

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Jalview Developers Andrew Waterhouse, James Procter, David Martin and Geoffrey Barton at the University of Dundee. Original version by Michele Clamp, James Cuff, Stephen Searle, Geoffrey Barton. Stable release 2.11.2[1] / 10 March 2022; 4 years ago (2022-03-10) Written in Java Operating system UNIX, Linux, Mac OS X, Microsoft Windows Type Bioinformatics tool Licence GPL Website http://www.jalview.org

**Jalview** is a piece of [bioinformatics](/source/Bioinformatics) software that is used to look at and edit [multiple sequence alignments](/source/Multiple_sequence_alignment). The program was originally written by Michele Clamp whilst working in [Geoff Barton](/source/Geoff_Barton_(scientist))'s group at the [University of Oxford](/source/University_of_Oxford) and [European Bioinformatics Institute](/source/European_Bioinformatics_Institute) (EBI).[2] Jalview 2, a re-engineered version produced by Andrew Waterhouse and Jim Procter whilst working in Geoff Barton's group at the [School of Life Sciences](/source/School_of_Life_Sciences_(University_of_Dundee)), [University of Dundee](/source/University_of_Dundee), was released in 2005,[3] and its development is supported by the [Biotechnology and Biological Sciences Research Council](/source/Biotechnology_and_Biological_Sciences_Research_Council) (BBSRC) and [Wellcome Trust](/source/Wellcome_Trust).

It is used widely by a variety of web servers (e.g. the EBI [ClustalW](/source/ClustalW) server and the [Pfam](/source/Pfam) protein domain database) but is also available as a general purpose alignment editor.

Jalview has a wide range of functions in addition to multiple sequence alignment generation, viewing and editing, including calculating [phylogenetic trees](/source/Phylogenetic_tree) and viewing molecular structures. Recent versions of Jalview include features for the analysis of genetic variation from public databases or local [Variant Call Format](/source/Variant_Call_Format) (VCF) files. Jalview connects to many external [web services](/source/Web_services) to import data and perform calculations.

## See also

- [Jpred](/source/Jpred)

## References

1. **[^](#cite_ref-1)** ["Release History"](https://web.archive.org/web/20190306111456/http://www.jalview.org/development/release-history). Archived from [the original](http://www.jalview.org/development/release-history) on 2019-03-06. Retrieved 2016-05-30.

1. **[^](#cite_ref-pmid14960472_2-0)** Clamp M, Cuff J, Searle SM, Barton GJ (February 2004). ["The Jalview Java alignment editor"](https://doi.org/10.1093%2Fbioinformatics%2Fbtg430). *Bioinformatics*. **20** (3): 426–7. [doi](/source/Doi_(identifier)):[10.1093/bioinformatics/btg430](https://doi.org/10.1093%2Fbioinformatics%2Fbtg430). [PMID](/source/PMID_(identifier)) [14960472](https://pubmed.ncbi.nlm.nih.gov/14960472).

1. **[^](#cite_ref-pmid19151095_3-0)** Waterhouse AM, Procter JB, Martin DM, Clamp M, Barton GJ (May 2009). ["Jalview Version 2--a multiple sequence alignment editor and analysis workbench"](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2672624). *Bioinformatics*. **25** (9): 1189–91. [doi](/source/Doi_(identifier)):[10.1093/bioinformatics/btp033](https://doi.org/10.1093%2Fbioinformatics%2Fbtp033). [PMC](/source/PMC_(identifier)) [2672624](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2672624). [PMID](/source/PMID_(identifier)) [19151095](https://pubmed.ncbi.nlm.nih.gov/19151095).

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Adapted from the Wikipedia article [Jalview](https://en.wikipedia.org/wiki/Jalview) by Wikipedia contributors ([contributor history](https://en.wikipedia.org/wiki/Jalview?action=history)). Available under [Creative Commons Attribution-ShareAlike 4.0 International](https://creativecommons.org/licenses/by-sa/4.0/). Changes may have been made.