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_feature_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 the filtered VCF files
*.vcf.gz
tbi
Channel containing the index of the filtered VCF files
Structure: [ val(meta), path(tbi) ]
*.tbi
