树猴：一种整合的系统发生工具，从序列到系统发育分析。
Treerecs: an integrated phylogenetic tool, from sequences to reconciliations.
机构信息
Inria Grenoble Rhône-Alpes, 38334 Montbonnot, France.
Computational Molecular Evolution Group, Heidelberg Institute for Theoretical Studies, Heidelberg, Germany.
出版信息
Bioinformatics. 2020 Sep 15;36(18):4822-4824. doi: 10.1093/bioinformatics/btaa615.
MOTIVATION
Gene and species tree reconciliation methods are used to interpret gene trees, root them and correct uncertainties that are due to scarcity of signal in multiple sequence alignments. So far, reconciliation tools have not been integrated in standard phylogenetic software and they either lack performance on certain functions, or usability for biologists.
RESULTS
We present Treerecs, a phylogenetic software based on duplication-loss reconciliation. Treerecs is simple to install and to use. It is fast and versatile, has a graphic output, and can be used along with methods for phylogenetic inference on multiple alignments like PLL and Seaview.
AVAILABILITY AND IMPLEMENTATION
Treerecs is open-source. Its source code (C++, AGPLv3) and manuals are available from https://project.inria.fr/treerecs/.
动机
基因和物种树协调方法用于解释基因树，将其根化，并纠正由于多重序列比对中信号匮乏而导致的不确定性。到目前为止，协调工具尚未集成到标准的系统发育软件中，它们要么在某些功能上缺乏性能，要么对生物学家来说不可用。
结果
我们提出了 Treerecs，这是一个基于复制-缺失协调的系统发育软件。Treerecs 易于安装和使用。它速度快、用途广泛，具有图形输出，可以与 PLL 和 Seaview 等多重比对系统发育推断方法一起使用。
可用性和实现
Treerecs 是开源的。它的源代码（C++，AGPLv3）和手册可从 https://project.inria.fr/treerecs/ 获得。
Zotero 插件