1下载安装,设置环境变量

cd biosoft
wget https://rth.dk/resources/risearch/RIsearch-2.1.tar.gz
tar -xzvf RIsearch-2.1.tar.gz
cd RIsearch-2.1
less README
less INSTALL

加入环境变量

cp /home/kelly/biosoft/RIsearch-2.1/bin/risearch2.x /home/kelly/bin/.

查看用法

risearch2.x

================================ RIsearch v2.1 ===============================
================ Energy based RNA-RNA interaction predictions ================

Usage: risearch2.x [options]

至此，可以直接用了。

2 Burkholderia pseudomallei 为例

2.0NCBI下载Burkholderia pseudomallei BPC006fasta文件

2.1 生成index文件

risearch2.x -c 1_NC_018527.1.fa -o 1_NC_018527.1.suf
risearch2.x -c 2_NC_018529.1.fa -o 2_NC_018529.1.suf

2.2 RNA-RNA作用预测

这里预测一段sRNA的靶基因

risearch2.x -q candidate1.fa -i 1_NC_018527.1.suf