Tool Reference
Many of the default parameter values shown are determined at runtime, based on the available number of CPU cores and amount of CPU memory.
Tools By Category
Alphabetical List of Tools
- applybqsr
- bam2fq
- bammetrics
- bamsort
- bqsr
- collectmultiplemetrics
- dbsnp
- deepsomatic
- deepvariant
- deepvariant_germline
- fq2bam
- fq2bam_meth
- genotypegvcf
- germline
- giraffe
- haplotypecaller
- indexgvcf
- markdup
- minimap2
- mutectcaller
- ont_germline
- pacbio_germline
- pangenome_aware_deepvariant
- pangenome_germline
- postpon
- prepon
- rna_fq2bam
- somatic
- starfusion