Difference between revisions of "Vep"
(New page: Date : 2013/10/14 Author : kchennen == Variant Effect Predictor ==) |
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| − | == Variant Effect Predictor == | + | == [http://www.ensembl.org/info/docs/tools/vep/script/index.html 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 [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 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)? | ||
Revision as of 15:11, 15 October 2013
Date : 2013/10/14 Author : kchennen
Variant Effect Predictor
- 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)?
