WGS-processing/yml/helper/gatk-baserecalibrator-with-interval.yml

   1 bam:
   2   class: File
   3   location: keep:79407f4f0d46a44fcc9c377461ee85fc+53752/marked_dupsERR1726424.sorted.bam
   4
   5 reference:
   6   class: File
   7   location: keep:a3af04432df3d71d22f2fe8be549ba96+5974/hg38.fa
   8
   9 sample: ERR1726424
  10
  11 knownsites1:
  12   class: File
  13   format: edam:format_3016
  14   location: keep:7c0b13bda857fa15d88c1039182f69d5+8052/Homo_sapiens_assembly38.dbsnp138.vcf
  15
  16 knownsites2:
  17   class: File
  18   format: edam:format_3016
  19   location: keep:7c0b13bda857fa15d88c1039182f69d5+8052/Homo_sapiens_assembly38.known_indels.vcf.gz
  20
  21 intervallist:
  22   class: File
  23   location: keep:4d4947f6637f0acec32580e09d991967+815/0000-scattered.interval_list