TreeSwift: A massively scalable Python']Python tree package

被引：15
|
作者：
Moshiri, N. [1 ]
机构：
[1] Univ Calif San Diego, Dept Comp Sci & Engn, La Jolla, CA 92093 USA
来源：
SOFTWAREX | 2020年 / 11卷
关键词：
Phylogenetics; Tree traversal; Scalable; !text type='Python']Python[!/text;
D O I：
10.1016/j.softx.2020.100436
中图分类号：
TP31 [计算机软件];
学科分类号：
081202 ; 0835 ;
摘要：
Phylogenetic trees are essential to evolutionary biology, and numerous methods exist that attempt to extract phylogenetic information applicable to a wide range of disciplines, such as epidemiology and metagenomics. Currently, the three main Python packages for trees are Bio.Phylo, DendroPy, and the ETE Toolkit, but as dataset sizes grow, parsing and manipulating ultra-large trees becomes impractical for these tools. To address this issue, we present TreeSwift, a user-friendly and massively scalable Python package for traversing and manipulating trees that is ideal for algorithms performed on ultra-large trees. (C) 2020 The Author. Published by Elsevier B.V.
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页数：4
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