DendroPy: a Python library for phylogenetic computing

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ID: 291722
2010
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Abstract
Abstract Summary: 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 phyloinformatics and phylogeographic pipelines. Availability: The stable release of the library is available for download and automated installation through the Python Package Index site (http://pypi.python.org/pypi/DendroPy), while the active development source code repository is available to the public from GitHub (http://github.com/jeetsukumaran/DendroPy). Contact: jeet@ku.edu
Reference Key
openalex_W2139736670 Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors Jeet Sukumaran, Mark T. Holder
Journal BMC Bioinformatics
Year 2010
DOI
10.1093/bioinformatics/btq228
URL
https://academic.oup.com/bioinformatics/article-pdf/26/12/1569/48858541/bioinformatics_26_12_1569.pdf
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