name: ENSEMBLVEP description: Ensembl Variant Effect Predictor (VEP) keywords: - annotation tools: - ensemblvep: description: | 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: https://www.ensembl.org/info/docs/tools/vep/index.html documentation: https://www.ensembl.org/info/docs/tools/vep/script/index.html licence: ["Apache-2.0"] params: - use_cache: type: boolean description: | Enable the usage of containers with cache Does not work with conda - vep_tag: type: value description: | Specify the tag for the container https://hub.docker.com/r/nfcore/vep/tags input: - meta: type: map description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] - vcf: type: file description: | vcf to annotate - genome: type: value description: | which genome to annotate with - species: type: value description: | which species to annotate with - cache_version: type: value description: | which version of the cache to annotate with - cache: type: file description: | path to VEP cache (optional) output: - vcf: type: file description: | annotated vcf pattern: "*.ann.vcf" - report: type: file description: VEP report file pattern: "*.html" - versions: type: file description: File containing software versions pattern: "versions.yml" authors: - "@maxulysse"