Lifts over a VCF file from one reference build to another.
meta
Groovy Map containing sample information e.g. [ id:‘test’, single_end
input_vcf
VCF file
*.{vcf,vcf.gz}
meta2
Groovy Map containing reference information e.g. [ id:‘genome’ ]
fasta
fasta file
*.fasta
meta3
dict
dictionary for fasta file
*.{dict}
meta4
chain
The liftover chain file
versions
File containing software versions
versions.yml
vcf_lifted
VCF file containing successfully lifted variants
*.{lifted.vcf.gz}
vcf_unlifted
VCF file containing unsuccessfully lifted variants
*.{unlifted.vcf.gz}
Move annotations from one assembly to another
