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- Title
Java bioinformatics analysis web services for multiple sequence alignment—JABAWS:MSA.
- Authors
Troshin, Peter V.; Procter, James B.; Barton, Geoffrey J.
- Abstract
Summary: JABAWS is a web services framework that simplifies the deployment of web services for bioinformatics. JABAWS:MSA provides services for five multiple sequence alignment (MSA) methods (Probcons, T-coffee, Muscle, Mafft and ClustalW), and is the system employed by the Jalview multiple sequence analysis workbench since version 2.6. A fully functional, easy to set up server is provided as a Virtual Appliance (VA), which can be run on most operating systems that support a virtualization environment such as VMware or Oracle VirtualBox. JABAWS is also distributed as a Web Application aRchive (WAR) and can be configured to run on a single computer and/or a cluster managed by Grid Engine, LSF or other queuing systems that support DRMAA. JABAWS:MSA provides clients full access to each application's parameters, allows administrators to specify named parameter preset combinations and execution limits for each application through simple configuration files. The JABAWS command-line client allows integration of JABAWS services into conventional scripts.Availability and Implementation: JABAWS is made freely available under the Apache 2 license and can be obtained from: http://www.compbio.dundee.ac.uk/jabaws.Contact: g.j.barton@dundee.ac.uk
- Subjects
SEQUENCE alignment; GENETIC techniques; JAVA programming language; WEB services; COMPUTER operating systems; CLIENT/SERVER computing; COMPUTER files
- Publication
Bioinformatics, 2011, Vol 27, Issue 14, p2001
- ISSN
1367-4803
- Publication type
Article
- DOI
10.1093/bioinformatics/btr304