germline_fastq_description.json

{
  "r1_fastq": {
    "description": "R1 fastq files"
  },
  "r2_fastq": {
    "description": "R2 fastq files"
  },
  "read_groups": {
    "description": "Sample read groups"
  },
  "reference_name": {
    "description": "The name of the Human reference genome build. Choices are: hg38_alt/hg38_gatk, hg38/hg38_noalt/hs38, b37_gatk, b37/hs37d5, or hg19/ucsc_hg19"
  },
  "output_gvcf": {
    "description": "Output variant calls in the gVCF format instead of VCF (default: false)",
    "optional": true
  },
  "canonical_user_id": {
    "description": "Your account's AWS canonical user ID. Used to acquire a Sentieon license"
  },
  "sentieon_docker": {
    "description": "Sentieon docker image"
  },
  "dnascope_model": {
    "description": "The Sentieon DNAscope variant calling model",
    "optional": true
  },
  "is_pcr_free": {
    "description": "Set to `true` if the data is processed with a PCR-free library prep",
    "optional": true
  },
  "n_threads": {
    "description": "Number of vCPUs to allocate for the task (default: 32)",
    "optional": true
  },
  "memory": {
    "description": "Memory to allocate for the task (default: 64 GiB)",
    "optional": true
  }
}