DOI: 10.1093/bioinformatics/btp163. Biopython: freely available Python tools for computational molecular biology and bioinformatics

Biopython: freely available Python tools for computational molecular biology and bioinformatics

10.1093/bioinformatics/btp163

Crossref journal-article

Oxford University Press (OUP)

Bioinformatics (286)

Abstract

Abstract Summary: The Biopython project is a mature open source international collaboration of volunteer developers, providing Python libraries for a wide range of bioinformatics problems. Biopython includes modules for reading and writing different sequence file formats and multiple sequence alignments, dealing with 3D macro molecular structures, interacting with common tools such as BLAST, ClustalW and EMBOSS, accessing key online databases, as well as providing numerical methods for statistical learning. Availability: Biopython is freely available, with documentation and source code at www.biopython.org under the Biopython license. Contact: All queries should be directed to the Biopython mailing lists, see www.biopython.org/wiki/_Mailing_listspeter.cock@scri.ac.uk.

Bibliography

Cock, P. J. A., Antao, T., Chang, J. T., Chapman, B. A., Cox, C. J., Dalke, A., Friedberg, I., Hamelryck, T., Kauff, F., Wilczynski, B., & de Hoon, M. J. L. (2009). Biopython: freely available Python tools for computational molecular biology and bioinformatics. Bioinformatics, 25(11), 1422â1423.

Authors 11

Peter J. A. Cock (first)
Tiago Antao (additional)
Jeffrey T. Chang (additional)
Brad A. Chapman (additional)
Cymon J. Cox (additional)
Andrew Dalke (additional)
Iddo Friedberg (additional)
Thomas Hamelryck (additional)
Frank Kauff (additional)
Bartek Wilczynski (additional)
Michiel J. L. de Hoon (additional)

References 23 Referenced 4,854

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10.1093/nar/gkh121 / Nucleic Acids Res. / The Pfam protein families database by Bateman (2004)
10.1098/rspb.1996.0237 / Proc. R. Soc. Lond. B / Evaluating loci for use in the genetic analysis of population structure by Beaumont (1996)
10.1093/nar/gkl986 / Nucleic Acids Res. / GenBank by Benson (2007)
{'key': '2023013111503526500_B6', 'first-page': '164', 'article-title': 'PHYLIP -phylogeny inference package (Version 3.2)', 'volume': '5', 'author': 'Felsenstein', 'year': '1989', 'journal-title': 'Cladistics'} / Cladistics / PHYLIP -phylogeny inference package (Version 3.2) by Felsenstein (1989)
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Dates

Type	When
Created	16 years, 5 months ago (March 20, 2009, 9:29 p.m.)
Deposited	2 years, 6 months ago (Jan. 31, 2023, 3:56 p.m.)
Indexed	20 minutes ago (Aug. 21, 2025, 6:23 a.m.)
Issued	16 years, 5 months ago (March 20, 2009)
Published	16 years, 5 months ago (March 20, 2009)
Published Online	16 years, 5 months ago (March 20, 2009)
Published Print	16 years, 2 months ago (June 1, 2009)

Funders 0

None

BibTeX

@article{Cock_2009, title={Biopython: freely available Python tools for computational molecular biology and bioinformatics}, volume={25}, ISSN={1367-4803}, url={http://dx.doi.org/10.1093/bioinformatics/btp163}, DOI={10.1093/bioinformatics/btp163}, number={11}, journal={Bioinformatics}, publisher={Oxford University Press (OUP)}, author={Cock, Peter J. A. and Antao, Tiago and Chang, Jeffrey T. and Chapman, Brad A. and Cox, Cymon J. and Dalke, Andrew and Friedberg, Iddo and Hamelryck, Thomas and Kauff, Frank and Wilczynski, Bartek and de Hoon, Michiel J. L.}, year={2009}, month=mar, pages={1422–1423} }

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