Department of Plant Biology, Michigan State University, East Lansing, MI 48824, USA.
Department of Plant Soil and Microbial Sciences, Michigan State University, East Lansing, MI 48824, USA.
Bioinformatics. 2021 Nov 5;37(21):3941-3943. doi: 10.1093/bioinformatics/btab347.
CONSTAX-the CONSensus TAXonomy classifier-was developed for accurate and reproducible taxonomic annotation of fungal rDNA amplicon sequences and is based upon a consensus approach of RDP, SINTAX and UTAX algorithms. CONSTAX2 extends these features to classify prokaryotes as well as eukaryotes and incorporates BLAST-based classifiers to reduce classification errors. Additionally, CONSTAX2 implements a conda-installable command-line tool with improved classification metrics, faster training, multithreading support, capacity to incorporate external taxonomic databases and new isolate matching and high-level taxonomy tools, replete with documentation and example tutorials.
CONSTAX2 is available at https://github.com/liberjul/CONSTAXv2, and is packaged for Linux and MacOS from Bioconda with use under the MIT License. A tutorial and documentation are available at https://constax.readthedocs.io/en/latest/. Data and scripts associated with the manuscript are available at https://github.com/liberjul/CONSTAXv2_ms_code.
Supplementary data are available at Bioinformatics online.
CONS-TAX（共识分类法）是一种真菌 rDNA 扩增子序列分类器，它基于 RDP、SINTAX 和 UTAX 算法的共识方法，旨在进行准确且可重复的分类注释。CON-STAX2 扩展了这些功能，可用于分类原核生物和真核生物，并结合了基于 BLAST 的分类器以减少分类错误。此外，CON-STAX2 实现了一个可通过 conda 安装的命令行工具，具有改进的分类指标、更快的训练速度、多线程支持、能够整合外部分类数据库以及新的分离物匹配和高级分类学工具，同时提供了文档和示例教程。
CON-STAX2 可在 https://github.com/liberjul/CONSTAXv2 上获取，并通过 Bioconda 为 Linux 和 MacOS 打包，根据 MIT 许可证使用。在 https://constax.readthedocs.io/zh_CN/latest/ 上提供了教程和文档。与手稿相关的数据和脚本可在 https://github.com/liberjul/CONSTAXv2_ms_code 上获取。
补充数据可在生物信息学在线获取。
Zotero 插件