T-Coffee

安装（Unix系统下）

安装T-Coffee

# 从以下网址下载与您的系统相对应的安装程序包：
  http://tcoffee.org/Packages/Stable/Latest/

# 授予可执行权限：
$ chmod +x T-COFFEE_install_"version_x".bin

# 运行
$ ./T-COFFEE_installer_"version_x".bin

# 按照向导说明完成安装

# 打开一个新的终端会话以确保您的环境已更新

# 验证是否安装成功
$ t_coffee -version

详见：T-Coffee官方手册

使用

# 最基础的使用方法
$ t_coffee sample_seq.fasta

# 运行M-Coffee
$ t_coffee sample_seq.fasta -mode mcoffee

参考内容

1. Notredame, Cédric, Desmond G. Higgins, and Jaap Heringa. “T-Coffee: A novel method for fast and accurate multiple sequence alignment.” Journal of molecular biology 302.1 (2000): 205-217.

2. Wallace, Iain M., et al. “M-Coffee: combining multiple sequence alignment methods with T-Coffee.” Nucleic acids research 34.6 (2006): 1692-1699.

3. T-Coffee and related packages documentation