Department of Biology, University of North Carolina at Greensboro, Greensboro, NC, USA.
Department of Integrative Biology, University of Texas at Austin, Austin, TX, USA.
Bioinformatics. 2018 Nov 1;34(21):3738-3740. doi: 10.1093/bioinformatics/bty400.
Classification of prokaryotic species is usually based on sequence similarity thresholds, which are easy to apply but lack a biologically-relevant foundation. Here, we present ConSpeciFix, a program that classifies prokaryotes into species using criteria set forth by the Biological Species Concept, thereby unifying species definition in all domains of life.
ConSpeciFix's webserver is freely available at www.conspecifix.com. The local version of the program can be freely downloaded from https://github.com/Bobay-Ochman/ConSpeciFix. ConSpeciFix is written in Python 2.7 and requires the following dependencies: Usearch, MCL, MAFFT and RAxML.
原核生物种的分类通常基于序列相似性阈值,这种方法易于应用,但缺乏生物学相关的基础。本文提出了 ConSpeciFix,这是一个使用生物物种概念规定的标准对原核生物进行分类的程序,从而统一了所有生命领域的物种定义。
ConSpeciFix 的网络服务器可免费在 www.conspecifix.com 上使用。该程序的本地版本可从 https://github.com/Bobay-Ochman/ConSpeciFix 上免费下载。ConSpeciFix 是用 Python 2.7 编写的,需要以下依赖项:Usearch、MCL、MAFFT 和 RAxML。