HaNjIhEoN1/snpEFF

snpEff

Genetic variant annotation and functional effect prediction toolbox. It annotates and predicts the effects of genetic variants on genes and proteins (such as amino acid changes).

manual manual(kor)

Index

1. Install Java
2. Install snpEff
3. In Linux shell

1. Install Java

1. apt-get update


2. sudo apt-get install openjdk-8-jdk


3. which javac  or  readlink -f /usr/bin/javac # javac path

4. sudo vi /etc/profile
    add export JAVA_HOME=/usr/lib/jvm/java-8-openjdk-amd64
        export PATH=$JAVA_HOME/bin/:$PATH
        export CLASS_PATH=$JAVA_HOME/lib:$CLASS_PATH
        
5. source /etc/profile
    echo $JAVA_HOME

2. Install snpEff

1. wget http://sourceforge.net/projects/snpeff/files/snpEff_latest_core.zip

2. unzip snpEff_latest_core.zip