Filter VCF file with bcftools and filter_vep
ch_vcf
The input channel containing the VCF files Structure: [ val(meta), path(vcf) ]
*.{vcf/vcf.gz}
ch_filter_vep_file
File to pass to filter_vep, containing e.g. HGNC IDs to filter on Structure: [ val(meta), path(txt) ]
filter_with_bcftools
Whether to filter the VCF file with bcftools before passing it to filter_vep
filter_with_filter_vep
Whether to filter the VCF file with filter_vep
vcf
Channel containing VCF files Structure: [ val(meta), path(bam) ]
*.vcf.gz
bai
Channel containing indexed VCF (TBI) files Structure: [ val(meta), path(bai) ]
*.tbi
versions
File containing software versions Structure: [ path(versions.yml) ]
versions.yml
