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