{{Infobox Software |name=Jalview |screenshot=Non-homologous exon alignment.jpg |developer=Andrew Waterhouse, James Procter, David Martin and Geoffrey Barton at the [[University of Dundee]].<br>Original version by Michele Clamp, James Cuff, Stephen Searle, Geoffrey Barton. |latest_release_version = 2.11.2<ref>{{cite web|url=http://www.jalview.org/development/release-history|title=Release History|access-date=2016-05-30|archive-date=2019-03-06|archive-url=https://web.archive.org/web/20190306111456/http://www.jalview.org/development/release-history|url-status=dead}}</ref> |latest release date = {{release date and age|2022|03|10|df=yes}} |operating_system=[[UNIX]], [[Linux]], [[Mac OS X]], [[Microsoft Windows]] |genre=Bioinformatics tool |programming language = Java |licence=[[GPL]] |website=http://www.jalview.org }} '''Jalview''' is a piece of [[bioinformatics]] software that is used to look at and edit [[multiple sequence alignment]]s. The program was originally written by Michele Clamp whilst working in [[ Geoff Barton (scientist)|Geoff Barton]]'s group at the [[University of Oxford]] and [[European Bioinformatics Institute]] (EBI).<ref name="pmid14960472">{{cite journal |vauthors=Clamp M, Cuff J, Searle SM, Barton GJ |title=The Jalview Java alignment editor |journal=Bioinformatics |volume=20 |issue=3 |pages=426–7 |date=February 2004 |pmid=14960472 |doi=10.1093/bioinformatics/btg430 |doi-access=free }}</ref> 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 (University of Dundee)|School of Life Sciences]], [[University of Dundee]], was released in 2005,<ref name="pmid19151095">{{cite journal |vauthors=Waterhouse AM, Procter JB, Martin DM, Clamp M, Barton GJ |title=Jalview Version 2--a multiple sequence alignment editor and analysis workbench |journal=Bioinformatics |volume=25 |issue=9 |pages=1189–91 |date=May 2009 |pmid=19151095 |pmc=2672624 |doi=10.1093/bioinformatics/btp033 }}</ref> and its development is supported by the [[Biotechnology and Biological Sciences Research Council]] (BBSRC) and [[Wellcome Trust]].
It is used widely by a variety of web servers (e.g. the EBI [[ClustalW]] server and the [[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 tree]]s and viewing molecular structures. Recent versions of Jalview include features for the analysis of genetic variation from public databases or local [[Variant Call Format]] (VCF) files. Jalview connects to many external [[web services]] to import data and perform calculations.
==See also== *[[Jpred]] ==References== {{Reflist}}
[[Category:Phylogenetics software]] [[Category:Genetics in the United Kingdom]] [[Category:Science and technology in Cambridgeshire]] [[Category:South Cambridgeshire District]]