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Oxford University Press (OUP), Bioinformatics, 20(28), p. 2693-2695

DOI: 10.1093/bioinformatics/bts494

Oxford University Press (OUP), Bioinformatics, 18(24), p. 2096-2097

DOI: 10.1093/bioinformatics/btn397

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BioJava: an open-source framework for bioinformatics

Journal article published in 2008 by Pocock Mr, Spencer E. Bliven, T. A. Down, Peter W. Rose, Julius Jacobsen, Andreas Prlić, M. Pocock, Richard C. G. Holland, Peter V. Troshin, Mark Chapman, D. Huen, Jianjiong Gao, K. James, Andrew Yates, Chuan Hock Koh and other authors.
This paper is made freely available by the publisher.
This paper is made freely available by the publisher.

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Abstract

Motivation: BioJava is an open-source project for processing of biological data in the Java programming language. We have recently released a new version (3.0.5), which is a major update to the code base that greatly extends its functionality. Results: BioJava now consists of several independent modules that provide state-of-the-art tools for protein structure comparison, pairwise and multiple sequence alignments, working with DNA and protein sequences, analysis of amino acid properties, detection of protein modifications and prediction of disordered regions in proteins as well as parsers for common file formats using a biologically meaningful data model.