articleBioinformaticsApr 25, 2010BRONZE OA

DendroPy: a Python library for phylogenetic computing

JSJeet SukumaranMTMark T. Holder

University of Kansas

PubMed
Indexed incrossrefdoajpubmed

Abstract

UNLABELLED: DendroPy is a cross-platform library for the Python programming language that provides for object-oriented reading, writing, simulation and manipulation of phylogenetic data, with an emphasis on phylogenetic tree operations. DendroPy uses a splits-hash mapping to perform rapid calculations of tree distances, similarities and shape under various metrics. It contains rich simulation routines to generate trees under a number of different phylogenetic and coalescent models. DendroPy's data simulation and manipulation facilities, in conjunction with its support of a broad range of phylogenetic data formats (NEXUS, Newick, PHYLIP, FASTA, NeXML, etc.), allow it to serve a useful role in various…

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1,745
total citations
FWCI
21.10
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100%
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14
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Authors

2

Topics & keywords

Topics
Keywords
  • Python (programming language)
  • Computer science
  • Phylogenetic tree
  • Coalescent theory
  • Programming language
  • Pointer (user interface)
  • Java
  • Source code
UN Sustainable Development Goals
  • Quality Education
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