VEP安装指南

#下载依赖包

sudo apt-get install -y curl rsync tar make perl perl-base tabix

#设置perl环境变量

export PERL_PATH=~/perl5

#在perl安装依赖包

curl -L http://cpanmin.us | perl - --notest -l $PERL_PATH LWP::Simple LWP::Protocol::https Archive::Extract Archive::Tar Archive::Zip CGI DBI Time::HiRes

export PERL5LIB=$PERL_PATH/lib/perl5:$PERL_PATH/lib/perl5/x86_64-linux

#新建vep安装目录

export VEP_PATH=~/vep
export VEP_DATA=~/.vep

#下载vep

mkdir $VEP_PATH $VEP_DATA; cd $VEP_PATH

curl -LO https://github.com/Ensembl/ensembl-tools/archive/release/84.tar.gz

tar -zxf 84.tar.gz --starting-file variant_effect_predictor --transform='s|.*/|./|g'

#设置环境变量

export PERL5LIB=$VEP_PATH:$PERL5LIB
export PATH=$VEP_PATH/htslib:$PATH

#下载注释包

rsync -zvh rsync://ftp.ensembl.org/ensembl/pub/release-84/