Geneious Grid-Aware Bioinformatics Software Version 2 Now Available for BeSTGRID
Posted on 30 May 2008 01:26
The Bioinformatics Institute New Zealand http://www.bioinformatics.org.nz at the University of Auckland and Biomatters Limited http://www.biomatters.com announce Version 2 of Geneious software for grid computing on BeSTGRID. BeSTGRID is the Broadband enabled Science and Technology Grid running on the Kiwi Advanced Research & Education Network (KAREN) to provide high-speed, high-capacity internet to New Zealand academics, researchers and educators.
Biomatters Ltd and The Bioinformatics Institute New Zealand are working together to make a suite of grid-computing bioinformatics applications available to BeSTGRID users, with funding support from REANNZ Ltd and TelstraClear Ltd. All the applications work with the free Basic version of Geneious desktop software, as well as the more advanced Geneious Pro.
The first grid application available in Version 1 was the Bayesian phylogenetic reconstruction program MrBayes specifically tailored to run on BeSTGRID. In Version 2, the following functionality has been added:
• Command Line Interface Creator (CLIC) – a plugin that allows a user to generate an XML description of a command line program and its options. This XML file is used by Geneious to develop a dialog box so that a user can run the program from within Geneious.
• PAUP* plugin, for phylogenetic reconstruction using parsimony, and other methods
• LAMARC plugin, for Markov Chain Monte Carlo likelihood estimation of population genetics parameters
• An improved CLUSTAL plugin, for multiple alignment
• A preliminary and basic Workflow Plugin, that aligns a set of sequences using CLUSTAL, then performs a phylogenetic analysis using PAUP*.
• Diagnostics for multiple alignments, showing alignment quality scores.
Queries about future versions of the client, and requests for additional features, should be directed to Professor Allen Rodrigo (a.rodrigo@auckland.ac.nz), Director of the Bioinformatics Institute New Zealand and Principal Investigator on the project. For software support, email support@geneious.com.
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Posted 01 Jul 2008 10:02