Filter variants based on Ensembl Variant Effect Predictor (VEP) annotations.
Input
name:type
description
pattern
meta:map
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
input:file
VCF/TAB file annotated with vep
*.{vcf,tab,tsv,txt}
feature_file:file
File containing features on separate lines. To be used with —filter option.
Output
name:type
description
pattern
output
meta:map
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
*.${extension}:file
VCF/TAB file
*.{vcf,tab,txt,tsv}
versions
versions.yml:file
File containing software versions
versions.yml
Tools
ensemblvep
Apache-2.0
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.
