Groovy Map containing tool parameters. MUST follow the structure/keywords below and be provided via modules.config. Parameters must be set between quotes.
{ [ "args": "", "caller": "delly" // Should be either delly, lumpy, manta, wham or melt ] }
meta (map)
Groovy Map containing sample information
e.g. [ id:‘test’, single_end
]
vcf (file)
A gzipped VCF file to be standardized
*.vcf.gz
fasta_fai (file)
Optional fasta index file that specifies the contigs to be used in the VCF header (defaults to all contigs of GRCh37)
*.fai
Output
Name (Type)
Description
Pattern
meta (map)
Groovy Map containing sample information
e.g. [ id:‘test’, single_end
