# Tumor only PureCN analysis with a PON (panel of normals)
details:
  - analysis: variant2
    genome_build: hg38
    algorithm:
      aligner: false
      svcaller: purecn
      variant_regions: /path/ton/config/panel.bed
      variantcaller: mutect2
      background:
        variant: /path/ton/config/pon_build-mutect2-annotated.vcf.gz
        cnv_reference:
          purecn_normaldb: /path/ton/config/normalDB_hg38.rds
          purecn_mapping_bias: /path/ton/config/mapping_bias_hg38.rds
    metadata:
        phenotype: tumor