BioJava']Java 5: A community driven open-source bioinformatics library

被引：33

作者：

Lafita, Aleix ^{[1
]}

Bliven, Spencer ^{[2
]}

Prlic, Andreas ^{[3
]}

Guzenko, Dmytro ^{[4
]}

Rose, Peter W. ^{[5
]}

Bradley, Anthony ^{[6
,7
,8
]}

Pavan, Paolo ^{[9
]}

Myers-Turnbull, Douglas ^{[10
]}

Valasatava, Yana ^{[4
]}

Heuer, Michael ^{[11
]}

Larson, Matt ^{[12
]}

Burley, Stephen K. ^{[4
,13
,14
]}

Duarte, Jose M. ^{[4
]}

机构：

[1] European Bioinformat Inst, European Mol Biol Lab, Wellcome Genome Campus, Cambridge CB10 1SD, England

[2] Zurich Univ Appl Sci ZHAW, CH-8021 Zurich, Switzerland

[3] Univ Calif San Diego, San Diego Supercomp Ctr, San Diego, CA 92093 USA

[4] Univ Calif San Diego, San Diego Supercomp Ctr, Res Collaboratory Struct Bioinformat Prot Data Ba, La Jolla, CA 92093 USA

[5] Univ Calif San Diego, San Diego Supercomp Ctr, Struct Bioinformat Lab, San Diego, CA 92093 USA

[6] Univ Oxford, Struct Genom Consortium, Oxford OX3 7DQ, England

[7] Univ Oxford, Dept Chem, Oxford OX1 3TA, England

[8] Diamond Light Source Ltd, Didcot OX11 0DE, Oxon, England

[9] Genomnia Srl, Milan, Italy

[10] Univ Calif San Francisco, Inst Neurodegenerat Dis, San Francisco, CA 94143 USA

[11] Univ Calif Berkeley, RISELab, Berkeley, CA 94720 USA

[12] DNASTAR, Madison, WI USA

[13] Rutgers State Univ, Inst Quantitat Biomed, Res Collaboratory Struct Bioinformat Prot Data Ba, Piscataway, NJ 08854 USA

[14] Univ Med & Dent New Jersey, Rutgers Canc Inst New Jersey, New Brunswick, NJ 08903 USA

来源：

PLOS COMPUTATIONAL BIOLOGY | 2019年 / 15卷 / 02期

基金：

巴西圣保罗研究基金会; 加拿大创新基金会; 美国国家科学基金会; 英国惠康基金;

关键词：

OPEN-SOURCE FRAMEWORK; SOFTWARE; PREDICTION; BIOLOGY;

D O I：

10.1371/journal.pcbi.1006791

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

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).

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