Restriction-modification systems and plasmids

This folder contains supplementary data files for the paper <br> Restriction-modification systems have shaped the evolution and distribution of plasmids across bacteria (2022) Liam P. Shaw, Eduardo P. C. Rocha, R. Craig MacLean. biorxiv doi: 10.1101/2022.12.15.520556v1 For more information on methods used to generate the data please see the paper. This data is linked to the github repository: https://github.com/liampshaw/R-M-and-plasmids An archived release v1.0.0 of this repository is also provided within this directory as R-M-and-plasmids-1.0.0.tar.gz. Furthermore, the software tool rmsFinder developed for this work (available at https://github.com/liampshaw/rmsFinder) is also provided within this directory as rmsFinder-1.0.0.tar.gz <br> As follows: * Clone git repository * Download and move this figshare data into a `data` directory within that repository * Run R scripts in `R-scripts` using `./run_analysis.sh` to re-generate figures and analysis included in paper <br> A guide to the data files is included in README.txt

本文件夹包含论文《限制-修饰系统（Restriction-modification systems）塑造了细菌质粒的演化与分布》（2022，作者Liam P. Shaw、Eduardo P. C. Rocha、R. Craig MacLean）的补充数据文件，该论文发表于bioRxiv，DOI编号为10.1101/2022.12.15.520556v1。
有关生成本数据集所用方法的详细信息，请参阅上述论文。
本数据集关联的GitHub仓库地址为：https://github.com/liampshaw/R-M-and-plasmids。本目录内同时提供了该仓库的v1.0.0归档发行版，文件名为R-M-and-plasmids-1.0.0.tar.gz。
此外，为本研究开发的软件工具rmsFinder（开源地址：https://github.com/liampshaw/rmsFinder）也以归档形式收录于本目录，文件名为rmsFinder-1.0.0.tar.gz。
复现流程如下：
* 克隆该Git仓库
* 将本figshare数据集下载并移动至该仓库内的`data`目录
* 执行`./run_analysis.sh`脚本运行`R-scripts`目录下的R脚本，即可重新生成论文中包含的图表与分析结果。
本数据集的文件使用说明详见目录内的README.txt文件。