The Java port of the VarDict variant caller
meta:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end
bams:file
One or two BAM files. Supply two BAM files to run Vardict in paired mode.
*.bam
bais:file
Index/indices of the BAM file(s)
*.bai
bed:file
BED with the regions of interest
*.bed
meta2:map
Groovy Map containing fasta information e.g. [ id:‘test’, single_end
fasta:file
FASTA of the reference genome
*.{fa,fasta}
meta3:map
fasta_fai:file
The index of the FASTA of the reference genome
*.fai
vcf
*.vcf.gz:file
VCF file output
*.vcf.gz
versions
versions.yml:file
File containing software versions
versions.yml
Java port of the VarDict variant discovery program
