Vep

Date : 2013/10/14 Author : kchennen

Variant Effect Predictor

• Source: http://www.ensembl.org/info/docs/tools/vep/script/index.html

• Installation on studio with Raymond
  • installation in /biolo/vep

• Download latest archieve (v73)

 > curl "http://cvs.sanger.ac.uk/cgi-bin/viewvc.cgi/ensembl-tools/scripts/variant_effect_predictor.tar.gz?view=tar&root=ensembl&pathrev=branch-ensembl-73" | tar xz
 > cd variant_effect_predictor  

• Install the API with a local cache in /biolo/vep/cache

 > perl INSTALL.pl -c /biolo/vep/cache
   Hello! This installer is configured to install v73 of the Ensembl API for use by the VEP.
   It will not affect any existing installations of the Ensembl API that you may have.
   
   It will also download and install cache files from Ensembl's FTP server.
   Checking for installed versions of the Ensembl API...done
   It looks like you already have v73 of the API installed.
   You shouldn't need to install the API
   
   Skip to the next step (n) to install cache files
   
   Do you want to continue installing the API (y/n)?