Peter Doherty Institute for Infection and Immunity, University of Melbourne, Melbourne 3010, Australia.
Melbourne Data Analytics Platform, University of Melbourne, Melbourne 3010, Australia.
Bioinformatics. 2022 Nov 15;38(22):5124-5125. doi: 10.1093/bioinformatics/btac664.
The ability to automatically conduct quality control checks on phylogenetic analyses is becoming more important with the increase in genetic sequencing and the use of real-time pipelines e.g. in the SARS-CoV-2 era. Implementations of real-time phylogenetic analyses require automated testing to make sure that problems in the data are caught automatically within analysis pipelines and in a timely manner. Here, we present Phytest (version 1.1) a tool for automating quality control checks on sequences, trees and metadata during phylogenetic analyses.
Phytest is a phylogenetic analysis testing program that easily integrates into existing phylogenetic pipelines. We demonstrate the utility of Phytest with real-world examples.
Phytest source code is available on GitHub (https://github.com/phytest-devs/phytest) and can be installed via PyPI with the command 'pip install phytest'. Extensive documentation can be found at https://phytest-devs.github.io/phytest/.
Supplementary data are available at Bioinformatics online.
随着基因测序的增加和实时管道的使用（例如在 SARS-CoV-2 时代），自动对系统发育分析进行质量控制检查的能力变得越来越重要。实时系统发育分析的实现需要自动化测试，以确保在分析管道和及时自动捕获数据中的问题。在这里，我们介绍了 Phytest（版本 1.1），这是一种用于在系统发育分析期间自动检查序列、树和元数据质量控制的工具。
Phytest 是一个系统发育分析测试程序，可轻松集成到现有的系统发育管道中。我们用真实示例演示了 Phytest 的实用性。
Phytest 的源代码可在 GitHub（https://github.com/phytest-devs/phytest）上获得，并且可以通过命令“pip install phytest”从 PyPI 安装。在 https://phytest-devs.github.io/phytest/ 可以找到详细的文档。
补充数据可在生物信息学在线获得。
