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

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

doi:10.1093/bioinformatics/btp163

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

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

Computational and RNA Biology

1700 Citations (Scopus)

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.

Original language	English
Journal	Bioinformatics
Volume	25
Issue number	11
Pages (from-to)	1422-3
Number of pages	1
ISSN	1367-4803
DOIs	https://doi.org/10.1093/bioinformatics/btp163
Publication status	Published - 2009

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title = "Biopython: freely available Python tools for computational molecular biology and bioinformatics",

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.",

author = "Cock, {Peter J A} and Tiago Antao and Chang, {Jeffrey T} and Chapman, {Brad A} and Cox, {Cymon J} and Andrew Dalke and Iddo Friedberg and Thomas Hamelryck and Frank Kauff and Bartek Wilczynski and {de Hoon}, {Michiel J L}",

note = "Keywords: Computational Biology; Databases, Factual; Internet; Programming Languages; Software",

year = "2009",

doi = "10.1093/bioinformatics/btp163",

language = "English",

volume = "25",

pages = "1422--3",

journal = "Bioinformatics",

issn = "1367-4803",

publisher = "Oxford University Press",

number = "11",

}

TY - JOUR

T1 - Biopython: freely available Python tools for computational molecular biology and bioinformatics

AU - Cock, Peter J A

AU - Antao, Tiago

AU - Chang, Jeffrey T

AU - Chapman, Brad A

AU - Cox, Cymon J

AU - Dalke, Andrew

AU - Friedberg, Iddo

AU - Hamelryck, Thomas

AU - Kauff, Frank

AU - Wilczynski, Bartek

AU - de Hoon, Michiel J L

N1 - Keywords: Computational Biology; Databases, Factual; Internet; Programming Languages; Software

PY - 2009

Y1 - 2009

N2 - 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.

AB - 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.

U2 - 10.1093/bioinformatics/btp163

DO - 10.1093/bioinformatics/btp163

M3 - Journal article

C2 - 19304878

SN - 1367-4803

VL - 25

SP - 1422

EP - 1423

JO - Bioinformatics

JF - Bioinformatics

IS - 11

ER -

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

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