The core Jalview team is based in Geoff Barton's Group at the University of Dundee and work closely with the Dundee Resource for Protein Sequence Analysis and Structure Prediction. The current Jalview team members are:
- Jim Procter (Jalview Coordinator)
- Mungo Carstairs (Research Software Engineer)
- Ben Soares (Research Software Engineer)
- Mateusz Warowny (Research Software Engineer)
- Suzanne Duce (Training and Outreach - joint with the Dundee Resource for Protein Structure Prediction)
See the bottom of this page for the full list of contributors and past members.
Jalview's core team work closely with the following collaborators:
Jalview's core team in Dundee is currently supported by the following grants:
- 2020-2024 218259Z/19/Z The Jalview resource for biological sequence, structure and function analysis: 2019 and beyond
Previous grants from the UK's Biotechnology and Biological Sciences Research Council and the Wellcome Trust
- 2014-2019 BB/L020742/1 The Jalview Resource for Sequence Analysis and Annotation
- 2013-2018 101651/Z/13/Z Extending The Jalview Resource for Biological Sequence Alignment and Analysis
- 2009-2014 BB/G022682/1 The Jalview Resource for Sequence Analysis and Annotation - www.jalview.org
- 2004-2007 BBS/B/16542 Visualisation of Biological Sequences, Alignments and Structures (VAMSAS)
The Jalview resource also relies on support from the Dundee Resource Sequence Analysis and Protein Secondary Structure Prediction which is supported by the following grants:
- 2018-2023 BB/R014752/1 The Dundee Resource for Sequence Analysis and Structure Prediction
- 2013-2018 BB/J019364/1 The Dundee Resource for Protein Structure Prediction and Sequence Analysis
Jalview's primary authors and contributors are listed below. The 'AUTHORS' file in Jalview's source provides the most up to date list of contributors for each release. Scroll down further for details of specific features implemented through community contributions and open-source supported student projects.
- Jim Procter
- Mungo Carstairs
- Ben Soares
- Kira Mourao
- Tochukwu Ofoegbu
- Jan Engelhardt
- Lauren Lui
- Anne Menard
- Natasha Sherstnev
- Daniel Barton
- David Roldan-Martinez
- Yann Ponty
- Andrew Waterhouse (Joint first author Jalview 2)
- Michele Clamp (Creator of Jalview 1)
- James Cuff (Jalview 1)
- Steve Searle (Jalview 1)
- David Martin (coinvestigator for original Jalview 2)
- Geoff Barton (Chief Bugtester for all versions of Jalview)
- Bob Hanson (St. Olaf College, USA) created SwingJS and helped us adapt Jalview's source code to create JalviewJS
- Thomas van Aalten (Astrophysics program, St. Andrews) - worked as a summer student in 2017 and 2019 to add support for working with the HMMER command line tools from Jalview and visualising sequence profiles (released in Jalview 2.12)
- Mateusz Warowny (Physics Masters, U. Dundee) created Slivka - which provide Jalview's third-generation of web services (released in 2020).
- Paolo di Tomasso (Center for Genomic Regulation, Spain)
Added support for parsing T-COFFEE score files and displaying them on the alignment, introduced in version 2.8.
- David Roldan-Martinez internationalised (i18n) Jalview's user interface and crowdsourced the first version of Jalview's spanish UI.
- Daniel Barton (Physics Masters, U. Dundee) added the RNAAliFold client and JABAWS service whilst a summer scholar with the Jalview team in 2013.
- Jan Engelhart (Stadler Bioinformatics Group, University of Leipzig, Germany)
Jan was our second Google Summer of Code student, in 2011, and implemented the RNA structure consensus logo, and embedded VARNA in the Jalview v2.8 desktop.
- Lauren Lui (Lowe Lab, University of California at Santa Cruz, USA)
Lauren was our first Google Summer of Code student in 2010, and implemented the RNA secondary structure annotation, and RNA helix colour scheme introduced in version 2.8.
- Bernd Brandt (originally in Jaap Heringa's group at the Free University of Amsterdam, last seen at the Academic Centre for Dentistry. Amsterdam (ACTA))
Bernd helped develop the Multi-Harmony protein alignment analysis web service.
- Benjamin Schuster-Böckler (originally at Wellcome Trust Sanger Institute, last seen at www.mekentosj.com)
Benjamin contributed the Stockholm parser introduced in version 2.1.
- Andreas Prlic (whilst at Wellcome Trust Sanger Institute, then the San Diego Supercomputing Center, USA).
Andreas wrote the first Java DAS client library, dasobert, used in Jalview 2.1 through to version 2.7, and made many suggestions on how Jalview could better use DAS.
If we've forgotten you, or you'd like to update your details, please contact us!
- The original Jalview 2 logo and site design was created by Andrew Waterhouse in 2005
- The Jalview logotype was created in 2012 by Barry Strachan
- Site design and development by Ryan McLaughlan and Andrew Millar in the Web Services group at Dundee College of Life Sciences
(developed from 1996 onwards at Oxford and EMBL-EBI)
- Michele Clamp
- James Cuff
- Stephen Searle
- Geoff Barton