Concatenates imputation chunks in a single VCF/BCF file ligating phased information.
meta
Groovy Map containing sample information e.g. [ id:‘test’, single_end
input_list
VCF/BCF file containing genotype probabilities (GP field).
*.{vcf,bcf,vcf.gz,bcf.gz}
input_index
Index file of the input VCF/BCF file containing genotype likelihoods.
*.{vcf.gz.csi,bcf.gz.csi}
versions
File containing software versions
versions.yml
merged_variants
Output VCF/BCF file for the merged regions. Phased information (HS field) is updated accordingly for the full region.
GLIMPSE is a phasing and imputation method for large-scale low-coverage sequencing studies.
