ww-vc-trio-inputs.json

{
  "ww_vc_trio.batchFile": "/path_to_inputs/batch_file.tsv",
  "ww_vc_trio.bedLocation": "/path_to_inputs/regions_of_interest.bed",
  "ww_vc_trio.ref_name": "hg19",
  "ww_vc_trio.ref_fasta": "/path_to_references/Homo_sapiens_assembly19.fasta",
  "ww_vc_trio.ref_fasta_index": "/path_to_references/Homo_sapiens_assembly19.fasta.fai",
  "ww_vc_trio.ref_dict": "/path_to_references/Homo_sapiens_assembly19.dict",
  "ww_vc_trio.ref_pac": "/path_to_references/Homo_sapiens_assembly19.fasta.pac",
  "ww_vc_trio.ref_sa": "/path_to_references/Homo_sapiens_assembly19.fasta.sa",
  "ww_vc_trio.ref_amb": "/path_to_references/Homo_sapiens_assembly19.fasta.amb",
  "ww_vc_trio.ref_ann": "/path_to_references/Homo_sapiens_assembly19.fasta.ann",
  "ww_vc_trio.ref_alt": "/path_to_references/Homo_sapiens_assembly19.fasta.alt",
  "ww_vc_trio.ref_bwt": "/path_to_references/Homo_sapiens_assembly19.fasta.bwt",
  "ww_vc_trio.dbSNP_vcf_index": "/path_to_references/dbsnp_138.b37.vcf.gz.tbi",
  "ww_vc_trio.dbSNP_vcf": "/path_to_references/dbsnp_138.b37.vcf.gz",
  "ww_vc_trio.known_indels_sites_indices": [
    "/path_to_references/Mills_and_1000G_gold_standard.indels.b37.sites.vcf.idx"
  ],
  "ww_vc_trio.known_indels_sites_VCFs": [
    "/path_to_references/Mills_and_1000G_gold_standard.indels.b37.sites.vcf"
  ],
  "ww_vc_trio.af_only_gnomad": "/path_to_references/af-only-gnomad.raw.sites.b37.vcf.gz",
  "ww_vc_trio.af_only_gnomad_index": "/path_to_references/af-only-gnomad.raw.sites.b37.vcf.gz.tbi",
  "ww_vc_trio.annovar_protocols": "refGene,knownGene,cosmic70,esp6500siv2_all,clinvar_20180603,gnomad211_exome",
  "ww_vc_trio.annovar_operation": "g,f,f,f,f,f"
}