recipe ensembl-vep

The VEP determines the effect of your variants (SNPs, insertions, deletions, CNVs or structural variants) on genes, transcripts, and protein sequence, as well as regulatory regions.

Homepage

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

License

Apache 2.0

Recipe

/ensembl-vep/meta.yaml

package ensembl-vep

(downloads) docker_ensembl-vep

Versions

96.0-0, 95.3-0, 95.2-0, 95.1-0, 95.0-1, 95.0-0, 94.5-0, 94.4-0, 94.0-0, 93.4-0, 93.2-0, 92.4-0, 92.3-0, 92.0-1, 91.3-1, 91.3-0, 91.2-0, 91.1-0, 91.0-0, 90.10-0, 90.9-1, 90.7-1, 90.7-0, 90.6-0, 90.5-0, 90.3-0, 90.1-1, 90.1-0, 89.7-0, 89.4-0, 89.1-2, 89.1-1, 88.10-1, 88.10-0, 88.9-2, 88.9-1, 88.9-0, 88.8-0, 88-0

Depends
Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install ensembl-vep

and update with:

conda update ensembl-vep

or use the docker container:

docker pull quay.io/biocontainers/ensembl-vep:<tag>

(see ensembl-vep/tags for valid values for <tag>)

Notes

This package installs only the variant effect predictor (VEP) library code. To install data libraries, you can use the ‘vep_install’ command installed along with it. For example, to install the VEP library for human GRCh38 to a directory

vep_install -a cf -s homo_sapiens -y GRCh38 -c /output/path/to/GRCh38/vep –CONVERT

(note that vep_install is renamed from INSTALL.pl

to avoid having generic script names in the PATH)

The –CONVERT flag is not required but improves lookup speeds during runs. See the VEP documentation for more details

http://www.ensembl.org/info/docs/tools/vep/script/vep_cache.html