Variant Effect Predictor Command line VEP
Use VEP to analyse your variation data locally. No limits, powerful, fast and extendable, command line VEP is the way to get the most out of VEP and Ensembl.
VEP is a powerful and highly configurable tool - have a browse through the documentation. You might also like to read up on the data formats that VEP uses, and the different ways you can access genome data. The VEP script can annotate your variants with custom data, be extended with plugins, and use powerful filtering to find biologically interesting results.
If you use VEP in your work, please cite our latest publication McLaren et. al. 2016 (doi:10.1186/s13059-016-0974-4)
Download and install
Examples & use cases