BioJava 5 : a community driven open-source bioinformatics library

Lafita, Aleix; Bliven, Spencer; Prlić, Andreas; Guzenko, Dmytro; Rose, Peter W.; Bradley, Anthony; Pavan, Paolo; Myers-Turnbull, Douglas; Valasatava, Yana; Heuer, Michael; Larson, Matt; Burley, Stephen K.; Duarte, Jose M.

doi:10.1371/journal.pcbi.1006791

Please use this identifier to cite or link to this item: https://doi.org/10.21256/zhaw-26200

Publication type:	Article in scientific journal
Type of review:	Peer review (publication)
Title:	BioJava 5 : a community driven open-source bioinformatics library
Authors:	Lafita, Aleix Bliven, Spencer Prlić, Andreas Guzenko, Dmytro Rose, Peter W. Bradley, Anthony Pavan, Paolo Myers-Turnbull, Douglas Valasatava, Yana Heuer, Michael Larson, Matt Burley, Stephen K. Duarte, Jose M.
et. al:	No
DOI:	10.1371/journal.pcbi.1006791 10.21256/zhaw-26200
Published in:	PLOS Computational Biology
Volume(Issue):	15
Issue:	2
Page(s):	e1006791
Issue Date:	2019
Publisher / Ed. Institution:	Public Library of Science
ISSN:	1553-7358
Language:	English
Subjects:	Bioinformatics; Structural genomics; Multiple alignment calculation; Protein structure; Comparison; Macromolecule; Molecular structure; Sequence alignment
Subject (DDC):	004: Computer science 570: Biology
Abstract:	BioJava is an open-source project that provides a Java library for processing biological data. The project aims to simplify bioinformatic analyses by implementing parsers, data structures, and algorithms for common tasks in genomics, structural biology, ontologies, phylogenetics, and more. Since 2012, we have released two major versions of the library (4 and 5) that include many new features to tackle challenges with increasingly complex macromolecular structure data. BioJava requires Java 8 or higher and is freely available under the LGPL 2.1 license. The project is hosted on GitHub at https://github.com/biojava/biojava. More information and documentation can be found online on the BioJava website (http://www.biojava.org) and tutorial (https://github.com/biojava/biojava-tutorial). All inquiries should be directed to the GitHub page or the BioJava mailing list (http://lists.open-bio.org/mailman/listinfo/biojava-l).
URI:	https://digitalcollection.zhaw.ch/handle/11475/26200
Fulltext version:	Published version
License (according to publishing contract):	CC BY 4.0: Attribution 4.0 International
Departement:	Life Sciences and Facility Management
Organisational Unit:	Institute of Computational Life Sciences (ICLS)
Appears in collections:	Publikationen Life Sciences und Facility Management

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Lafita, A., Bliven, S., Prlić, A., Guzenko, D., Rose, P. W., Bradley, A., Pavan, P., Myers-Turnbull, D., Valasatava, Y., Heuer, M., Larson, M., Burley, S. K., & Duarte, J. M. (2019). BioJava 5 : a community driven open-source bioinformatics library. PLOS Computational Biology, 15(2), e1006791. https://doi.org/10.1371/journal.pcbi.1006791

Lafita, A. et al. (2019) ‘BioJava 5 : a community driven open-source bioinformatics library’, PLOS Computational Biology, 15(2), p. e1006791. Available at: https://doi.org/10.1371/journal.pcbi.1006791.

A. Lafita et al., “BioJava 5 : a community driven open-source bioinformatics library,” PLOS Computational Biology, vol. 15, no. 2, p. e1006791, 2019, doi: 10.1371/journal.pcbi.1006791.

LAFITA, Aleix, Spencer BLIVEN, Andreas PRLIĆ, Dmytro GUZENKO, Peter W. ROSE, Anthony BRADLEY, Paolo PAVAN, Douglas MYERS-TURNBULL, Yana VALASATAVA, Michael HEUER, Matt LARSON, Stephen K. BURLEY und Jose M. DUARTE, 2019. BioJava 5 : a community driven open-source bioinformatics library. PLOS Computational Biology. 2019. Bd. 15, Nr. 2, S. e1006791. DOI 10.1371/journal.pcbi.1006791

Lafita, Aleix, Spencer Bliven, Andreas Prlić, Dmytro Guzenko, Peter W. Rose, Anthony Bradley, Paolo Pavan, et al. 2019. “BioJava 5 : A Community Driven Open-Source Bioinformatics Library.” PLOS Computational Biology 15 (2): e1006791. https://doi.org/10.1371/journal.pcbi.1006791.

Lafita, Aleix, et al. “BioJava 5 : A Community Driven Open-Source Bioinformatics Library.” PLOS Computational Biology, vol. 15, no. 2, 2019, p. e1006791, https://doi.org/10.1371/journal.pcbi.1006791.