| Rfam简介

Rfam是Rfam是用来鉴定non-coding RNAs的数据库，常用于注释新的核酸序列或者基因组序列。Rfam：http://eddylab.org/infernal/

Rfam用户手册：http://eddylab.org/infernal/Userguide.pdf

1. 下载infernal软件

# infernal-1.1.1.tar.gz 下载软件

    '''

# wget http://eddylab.org/software/infernal/infernal-1.1.1.tar.gz

# ./configure  --prefix=`pwd`/../infernal_bin

# make

# make install

# cd easel; make install

# cd ../../infernal_bin/bin

#ls

#  export PATH=${PATH}:`pwd` #更改环境变量

*在此文件中就可以看到已安装的文件

    '''

2. 下载数据库

    # wget ftp://ftp.ebi.ac.uk/pub/databases/Rfam/12.2/Rfam.cm.gz

# gunzip Rfam.cm.gz

# wget ftp://ftp.ebi.ac.uk/pub/databases/Rfam/12.2/Rfam12.2.claninfo

* 使用 Infernal的程序cmpress索引Rfam.cm

# ../infernal_bin/bin/cmpress Rfam.cm

*文件输出

Working... done.

Pressed and indexed 2588 CMs and p7 HMM filters (2588 names and 2588 accessions).

Covariance models and p7 filters pressed into binary file:  Rfam.cm.i1m

SSI index for binary covariance model file:                Rfam.cm.i1i

Optimized p7 filter profiles (MSV part)  pressed into:      Rfam.cm.i1f

Optimized p7 filter profiles (remainder) pressed into:      Rfam.cm.i1p