{
  "_schema": "https://data.nist.gov/od/dm/nerdm-schema/v0.7#",
  "@context": [
    "https://data.nist.gov/od/dm/nerdm-pub-context.jsonld",
    {
      "@base": "ark:/88434/mds2-2475"
    }
  ],
  "@type": [
    "nrdp:DataPublication",
    "nrdp:PublicDataResource",
    "dcat:Dataset"
  ],
  "_extensionSchemas": [
    "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/PublicDataResource"
  ],
  "@id": "ark:/88434/mds2-2475",
  "ediid": "ark:/88434/mds2-2475",
  "version": "1.0.1",
  "doi": "doi:10.18434/mds2-2475",
  "title": "Challenging Medically-Relevant Genes Benchmark Set",
  "contactPoint": {
    "fn": "Nathanael David Olson",
    "hasEmail": "mailto:nathanael.olson@nist.gov"
  },
  "modified": "2021-09-29",
  "status": "available",
  "landingPage": "https://data.nist.gov/od/id/mds2-2475",
  "description": [
    "CMRG v1.00 of a small variant benchmark and structural variant benchmark focused on 273 challenging medically relevant genes for the Genome in a Bottle (GIAB) sample HG002 (aka Ashkenazi son). These benchmarks were generated from a trio-based hifiasm v0.11 (https://doi.org/10.1038/s41592-020-01056-5) diploid assembly of HG002 using PacBio HiFi reads for HG002 for assembly and partitioning into phased haplotypes using Illumina reads for the parents, HG003 and HG004. This benchmark contains vcfs for small and structural variants along with corresponding benchmark bed files indicating regions that are homozygous reference if they do not have a variant in the vcf. We extensively curated the variant calls, excluding any found to be questionable or errors. This benchmark helps measure performance in important challenging regions, including challenging segmental duplications, regions with complex variants, regions with structural variants, and regions affected by false duplications in GRCh37 or GRCh38. This benchmark is described in https://doi.org/10.1101/2021.06.07.444885."
  ],
  "keyword": [
    "Human genomics",
    "DNA sequencing",
    "Reference materials",
    "Medical genomics",
    "Bioinformatics"
  ],
  "topic": [
    {
      "@type": "Concept",
      "scheme": "https://data.nist.gov/od/dm/nist-themes/v1.1",
      "tag": "Bioscience: Genomics"
    }
  ],
  "accessLevel": "public",
  "license": "https://www.nist.gov/open/license",
  "publisher": {
    "name": "National Institute of Standards and Technology",
    "@type": "org:Organization"
  },
  "language": [
    "en"
  ],
  "bureauCode": [
    "006:55"
  ],
  "programCode": [
    "006:052"
  ],
  "theme": [
    "Bioscience: Genomics"
  ],
  "components": [
    {
      "accessURL": "https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/release/AshkenazimTrio/HG002_NA24385_son/CMRG_v1.00/",
      "description": "NCBI Hosted Genome In A Bottle FTP Site",
      "title": "GIAB FTP Site",
      "@type": [
        "nrdp:AccessPage",
        "dcat:Distribution"
      ],
      "@id": "#/ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/release/AshkenazimTrio/HG002_NA24385_son/CMRG_v1.00/",
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/AccessPage"
      ]
    },
    {
      "accessURL": "https://github.com/usnistgov/giab-cmrg-benchmarkset",
      "description": "Github repository with code used to generate benchmark sets.",
      "title": "Code Repository",
      "@type": [
        "nrdp:AccessPage",
        "dcat:Distribution"
      ],
      "@id": "#usnistgov/giab-cmrg-benchmarkset",
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/AccessPage"
      ]
    },
    {
      "accessURL": "https://github.com/usnistgov/cmrg-benchmarkset-manuscript",
      "description": "Github repository with code used to generate figures and perform analysis for manuscript.",
      "title": "Code for Manuscript Analysis Repository",
      "@type": [
        "nrdp:AccessPage",
        "dcat:Distribution"
      ],
      "@id": "#usnistgov/cmrg-benchmarkset-manuscript",
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/AccessPage"
      ]
    },
    {
      "accessURL": "https://doi.org/10.18434/mds2-2475",
      "title": "DOI Access for Challenging Medically-Relevant Genes Benchmark Set",
      "@type": [
        "nrd:Hidden",
        "dcat:Distribution"
      ],
      "@id": "#doi:10.18434/mds2-2475"
    },
    {
      "@id": "cmps/benchmark_sets",
      "@type": [
        "nrdp:Subcollection"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/Subcollection"
      ],
      "filepath": "benchmark_sets"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh38",
      "@type": [
        "nrdp:Subcollection"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/Subcollection"
      ],
      "filepath": "benchmark_sets/GRCh38"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh38/StructuralVariant",
      "@type": [
        "nrdp:Subcollection"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/Subcollection"
      ],
      "filepath": "benchmark_sets/GRCh38/StructuralVariant"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh38/StructuralVariant/HG002_GRCh38_CMRG_SV_v1.00.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh38/StructuralVariant/HG002_GRCh38_CMRG_SV_v1.00.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh38/StructuralVariant/HG002_GRCh38_CMRG_SV_v1.00.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh38/StructuralVariant/HG002_GRCh38_CMRG_SV_v1.00.vcf.gz",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh38/StructuralVariant/HG002_GRCh38_CMRG_SV_v1.00.vcf.gz",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh38/StructuralVariant/HG002_GRCh38_CMRG_SV_v1.00.vcf.gz",
      "mediaType": "application/gzip"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh38/StructuralVariant/HG002_GRCh38_CMRG_SV_v1.00.vcf.gz.tbi",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh38/StructuralVariant/HG002_GRCh38_CMRG_SV_v1.00.vcf.gz.tbi",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh38/StructuralVariant/HG002_GRCh38_CMRG_SV_v1.00.vcf.gz.tbi",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh38/SmallVariant",
      "@type": [
        "nrdp:Subcollection"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/Subcollection"
      ],
      "filepath": "benchmark_sets/GRCh38/SmallVariant"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh38/SmallVariant/HG002_GRCh38_CMRG_smallvar_v1.00.vcf.gz",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh38/SmallVariant/HG002_GRCh38_CMRG_smallvar_v1.00.vcf.gz",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh38/SmallVariant/HG002_GRCh38_CMRG_smallvar_v1.00.vcf.gz",
      "mediaType": "application/gzip"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh38/SmallVariant/HG002_GRCh38_CMRG_smallvar_v1.00.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh38/SmallVariant/HG002_GRCh38_CMRG_smallvar_v1.00.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh38/SmallVariant/HG002_GRCh38_CMRG_smallvar_v1.00.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh38/SmallVariant/HG002_GRCh38_CMRG_smallvar_v1.00.vcf.gz.tbi",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh38/SmallVariant/HG002_GRCh38_CMRG_smallvar_v1.00.vcf.gz.tbi",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh38/SmallVariant/HG002_GRCh38_CMRG_smallvar_v1.00.vcf.gz.tbi",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh38/SupplementaryFiles",
      "@type": [
        "nrdp:Subcollection"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/Subcollection"
      ],
      "filepath": "benchmark_sets/GRCh38/SupplementaryFiles"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh38/SupplementaryFiles/GRCh38_CMRG_benchmark_gene_coordinates.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh38/SupplementaryFiles/GRCh38_CMRG_benchmark_gene_coordinates.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh38/SupplementaryFiles/GRCh38_CMRG_benchmark_gene_coordinates.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38",
      "@type": [
        "nrdp:Subcollection"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/Subcollection"
      ],
      "filepath": "benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38/HG002v11-align2-GRCh38.hap2.bam.bai",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38/HG002v11-align2-GRCh38.hap2.bam.bai",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38/HG002v11-align2-GRCh38.hap2.bam.bai",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38/HG002v11-align2-GRCh38.dip.vcf.gz",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38/HG002v11-align2-GRCh38.dip.vcf.gz",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38/HG002v11-align2-GRCh38.dip.vcf.gz",
      "mediaType": "application/gzip"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38/HG002v11-align2-GRCh38.hap1.bam",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38/HG002v11-align2-GRCh38.hap1.bam",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38/HG002v11-align2-GRCh38.hap1.bam",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38/HG002v11-align2-GRCh38.hap2.bam",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38/HG002v11-align2-GRCh38.hap2.bam",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38/HG002v11-align2-GRCh38.hap2.bam",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38/HG002v11-align2-GRCh38.dip.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38/HG002v11-align2-GRCh38.dip.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38/HG002v11-align2-GRCh38.dip.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38/HG002v11-align2-GRCh38.dip.vcf.gz.tbi",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38/HG002v11-align2-GRCh38.dip.vcf.gz.tbi",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38/HG002v11-align2-GRCh38.dip.vcf.gz.tbi",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38/HG002v11-align2-GRCh38.hap1.bam.bai",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38/HG002v11-align2-GRCh38.hap1.bam.bai",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh38/SupplementaryFiles/HG002v11-align2-GRCh38/HG002v11-align2-GRCh38.hap1.bam.bai",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh37",
      "@type": [
        "nrdp:Subcollection"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/Subcollection"
      ],
      "filepath": "benchmark_sets/GRCh37"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh37/StructuralVariant",
      "@type": [
        "nrdp:Subcollection"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/Subcollection"
      ],
      "filepath": "benchmark_sets/GRCh37/StructuralVariant"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh37/StructuralVariant/HG002_GRCh37_CMRG_SV_v1.00.vcf.gz.tbi",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh37/StructuralVariant/HG002_GRCh37_CMRG_SV_v1.00.vcf.gz.tbi",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh37/StructuralVariant/HG002_GRCh37_CMRG_SV_v1.00.vcf.gz.tbi",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh37/StructuralVariant/HG002_GRCh37_CMRG_SV_v1.00.vcf.gz",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh37/StructuralVariant/HG002_GRCh37_CMRG_SV_v1.00.vcf.gz",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh37/StructuralVariant/HG002_GRCh37_CMRG_SV_v1.00.vcf.gz",
      "mediaType": "application/gzip"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh37/StructuralVariant/HG002_GRCh37_CMRG_SV_v1.00.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh37/StructuralVariant/HG002_GRCh37_CMRG_SV_v1.00.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh37/StructuralVariant/HG002_GRCh37_CMRG_SV_v1.00.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh37/SmallVariant",
      "@type": [
        "nrdp:Subcollection"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/Subcollection"
      ],
      "filepath": "benchmark_sets/GRCh37/SmallVariant"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh37/SmallVariant/HG002_GRCh37_CMRG_smallvar_v1.00.vcf.gz",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh37/SmallVariant/HG002_GRCh37_CMRG_smallvar_v1.00.vcf.gz",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh37/SmallVariant/HG002_GRCh37_CMRG_smallvar_v1.00.vcf.gz",
      "mediaType": "application/gzip"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh37/SmallVariant/HG002_GRCh37_CMRG_smallvar_v1.00.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh37/SmallVariant/HG002_GRCh37_CMRG_smallvar_v1.00.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh37/SmallVariant/HG002_GRCh37_CMRG_smallvar_v1.00.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh37/SmallVariant/HG002_GRCh37_CMRG_smallvar_v1.00.vcf.gz.tbi",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh37/SmallVariant/HG002_GRCh37_CMRG_smallvar_v1.00.vcf.gz.tbi",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh37/SmallVariant/HG002_GRCh37_CMRG_smallvar_v1.00.vcf.gz.tbi",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh37/SupplementaryFiles",
      "@type": [
        "nrdp:Subcollection"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/Subcollection"
      ],
      "filepath": "benchmark_sets/GRCh37/SupplementaryFiles"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37",
      "@type": [
        "nrdp:Subcollection"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/Subcollection"
      ],
      "filepath": "benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37/HG002v11-align2-GRCh37.hap2.bam.bai",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37/HG002v11-align2-GRCh37.hap2.bam.bai",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37/HG002v11-align2-GRCh37.hap2.bam.bai",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37/HG002v11-align2-GRCh37.hap2.bam",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37/HG002v11-align2-GRCh37.hap2.bam",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37/HG002v11-align2-GRCh37.hap2.bam",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37/HG002v11-align2-GRCh37.dip.vcf.gz",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37/HG002v11-align2-GRCh37.dip.vcf.gz",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37/HG002v11-align2-GRCh37.dip.vcf.gz",
      "mediaType": "application/gzip"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37/HG002v11-align2-GRCh37.hap1.bam.bai",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37/HG002v11-align2-GRCh37.hap1.bam.bai",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37/HG002v11-align2-GRCh37.hap1.bam.bai",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37/HG002v11-align2-GRCh37.hap1.bam",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37/HG002v11-align2-GRCh37.hap1.bam",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37/HG002v11-align2-GRCh37.hap1.bam",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37/HG002v11-align2-GRCh37.dip.vcf.gz.tbi",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37/HG002v11-align2-GRCh37.dip.vcf.gz.tbi",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37/HG002v11-align2-GRCh37.dip.vcf.gz.tbi",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37/HG002v11-align2-GRCh37.dip.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37/HG002v11-align2-GRCh37.dip.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh37/SupplementaryFiles/HG002v11-align2-GRCh37/HG002v11-align2-GRCh37.dip.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/GRCh37/SupplementaryFiles/GRCh37_CMRG_benchmark_gene_coordinates.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/GRCh37/SupplementaryFiles/GRCh37_CMRG_benchmark_gene_coordinates.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/GRCh37/SupplementaryFiles/GRCh37_CMRG_benchmark_gene_coordinates.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/CHM13v1.0",
      "@type": [
        "nrdp:Subcollection"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/Subcollection"
      ],
      "filepath": "benchmark_sets/CHM13v1.0"
    },
    {
      "@id": "cmps/benchmark_sets/CHM13v1.0/SmallVariant",
      "@type": [
        "nrdp:Subcollection"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/Subcollection"
      ],
      "filepath": "benchmark_sets/CHM13v1.0/SmallVariant"
    },
    {
      "@id": "cmps/benchmark_sets/CHM13v1.0/SmallVariant/HG002_CHM13v1.0_CMRG_smallvar_v1.00_draft.vcf.gz.tbi",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/CHM13v1.0/SmallVariant/HG002_CHM13v1.0_CMRG_smallvar_v1.00_draft.vcf.gz.tbi",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/CHM13v1.0/SmallVariant/HG002_CHM13v1.0_CMRG_smallvar_v1.00_draft.vcf.gz.tbi",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/CHM13v1.0/SmallVariant/HG002_CHM13v1.0_CMRG_smallvar_v1.00_draft.vcf.gz",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/CHM13v1.0/SmallVariant/HG002_CHM13v1.0_CMRG_smallvar_v1.00_draft.vcf.gz",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/CHM13v1.0/SmallVariant/HG002_CHM13v1.0_CMRG_smallvar_v1.00_draft.vcf.gz",
      "mediaType": "application/gzip"
    },
    {
      "@id": "cmps/benchmark_sets/CHM13v1.0/SmallVariant/HG002_CHM13v1.0_CMRG_smallvar_v1.00_draft.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/CHM13v1.0/SmallVariant/HG002_CHM13v1.0_CMRG_smallvar_v1.00_draft.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/CHM13v1.0/SmallVariant/HG002_CHM13v1.0_CMRG_smallvar_v1.00_draft.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/CHM13v1.0/SupplementaryFiles",
      "@type": [
        "nrdp:Subcollection"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/Subcollection"
      ],
      "filepath": "benchmark_sets/CHM13v1.0/SupplementaryFiles"
    },
    {
      "@id": "cmps/benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002_CHM13_CMRG_smallvar_v1.00_GRCh38-equiv-regions_draft.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002_CHM13_CMRG_smallvar_v1.00_GRCh38-equiv-regions_draft.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002_CHM13_CMRG_smallvar_v1.00_GRCh38-equiv-regions_draft.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0",
      "@type": [
        "nrdp:Subcollection"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/Subcollection"
      ],
      "filepath": "benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0"
    },
    {
      "@id": "cmps/benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0/HG002v11-align2-CHM13v1.0.dip.vcf.gz",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0/HG002v11-align2-CHM13v1.0.dip.vcf.gz",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0/HG002v11-align2-CHM13v1.0.dip.vcf.gz",
      "mediaType": "application/gzip"
    },
    {
      "@id": "cmps/benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0/HG002v11-align2-CHM13v1.0.hap1.bam",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0/HG002v11-align2-CHM13v1.0.hap1.bam",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0/HG002v11-align2-CHM13v1.0.hap1.bam",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0/HG002v11-align2-CHM13v1.0.hap1.bam.bai",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0/HG002v11-align2-CHM13v1.0.hap1.bam.bai",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0/HG002v11-align2-CHM13v1.0.hap1.bam.bai",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0/HG002v11-align2-CHM13v1.0.hap2.bam.bai",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0/HG002v11-align2-CHM13v1.0.hap2.bam.bai",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0/HG002v11-align2-CHM13v1.0.hap2.bam.bai",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0/HG002v11-align2-CHM13v1.0.hap2.bam",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0/HG002v11-align2-CHM13v1.0.hap2.bam",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0/HG002v11-align2-CHM13v1.0.hap2.bam",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0/HG002v11-align2-CHM13v1.0.dip.vcf.gz.tbi",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0/HG002v11-align2-CHM13v1.0.dip.vcf.gz.tbi",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0/HG002v11-align2-CHM13v1.0.dip.vcf.gz.tbi",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0/HG002v11-align2-CHM13v1.0.dip.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0/HG002v11-align2-CHM13v1.0.dip.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/benchmark_sets/CHM13v1.0/SupplementaryFiles/HG002v11-align2-CHM13v1.0/HG002v11-align2-CHM13v1.0.dip.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/README.md",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "README.md",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/README.md",
      "mediaType": "text/plain"
    },
    {
      "@id": "cmps/dependencies",
      "@type": [
        "nrdp:Subcollection"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/Subcollection"
      ],
      "filepath": "dependencies"
    },
    {
      "@id": "cmps/dependencies/GRCh37_hifiasm_error.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "dependencies/GRCh37_hifiasm_error.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/dependencies/GRCh37_hifiasm_error.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/dependencies/GRCh38_curation_medicalgene_SV_errorsorunsure_repeatexpanded.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "dependencies/GRCh38_curation_medicalgene_SV_errorsorunsure_repeatexpanded.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/dependencies/GRCh38_curation_medicalgene_SV_errorsorunsure_repeatexpanded.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/dependencies/GRCh38_CD4_gaps_slop50.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "dependencies/GRCh38_CD4_gaps_slop50.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/dependencies/GRCh38_CD4_gaps_slop50.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/dependencies/GRCh37_MRG_GAPs.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "dependencies/GRCh37_MRG_GAPs.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/dependencies/GRCh37_MRG_GAPs.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/dependencies/GRCh37_curation_medicalgene_smallvar_complexrepeat_errorsorunsure_repeatexpanded.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "dependencies/GRCh37_curation_medicalgene_smallvar_complexrepeat_errorsorunsure_repeatexpanded.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/dependencies/GRCh37_curation_medicalgene_smallvar_complexrepeat_errorsorunsure_repeatexpanded.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/dependencies/GRCh38_curation_medicalgene_smallvar_complexrepeat_errorsorunsure_repeatexpanded.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "dependencies/GRCh38_curation_medicalgene_smallvar_complexrepeat_errorsorunsure_repeatexpanded.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/dependencies/GRCh38_curation_medicalgene_smallvar_complexrepeat_errorsorunsure_repeatexpanded.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/dependencies/GRCh37_mrg_full_gene.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "dependencies/GRCh37_mrg_full_gene.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/dependencies/GRCh37_mrg_full_gene.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/dependencies/GRCh38_CD4_gaps.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "dependencies/GRCh38_CD4_gaps.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/dependencies/GRCh38_CD4_gaps.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/dependencies/GRCh38_mrg_full_gene.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "dependencies/GRCh38_mrg_full_gene.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/dependencies/GRCh38_mrg_full_gene.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/dependencies/HiCanu_2.1_HG002_GRCh38_difficult_medical_gene_smallvar_benchmark_v0.02.03_intersected_FPs_repeatexpanded_slop50.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "dependencies/HiCanu_2.1_HG002_GRCh38_difficult_medical_gene_smallvar_benchmark_v0.02.03_intersected_FPs_repeatexpanded_slop50.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/dependencies/HiCanu_2.1_HG002_GRCh38_difficult_medical_gene_smallvar_benchmark_v0.02.03_intersected_FPs_repeatexpanded_slop50.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/dependencies/GRCh38_MRG_GAPs.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "dependencies/GRCh38_MRG_GAPs.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/dependencies/GRCh38_MRG_GAPs.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/dependencies/GRCh37_curation_medicalgene_SV_errorsorunsure.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "dependencies/GRCh37_curation_medicalgene_SV_errorsorunsure.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/dependencies/GRCh37_curation_medicalgene_SV_errorsorunsure.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/dependencies/HiCanu_2.1_HG002_GRCh37_difficult_medical_gene_smallvar_benchmark_v0.02.03_intersected_FPs_repeatexpanded_slop50.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "dependencies/HiCanu_2.1_HG002_GRCh37_difficult_medical_gene_smallvar_benchmark_v0.02.03_intersected_FPs_repeatexpanded_slop50.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/dependencies/HiCanu_2.1_HG002_GRCh37_difficult_medical_gene_smallvar_benchmark_v0.02.03_intersected_FPs_repeatexpanded_slop50.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/dependencies/HiCanu_2.1_HG002_GRCh38_difficult_medical_gene_smallvar_benchmark_v0.02.03_intersected_subtract_FPs_repeatexpanded_slop50_manual_curation_sites.tsv_manual_curation_sites.txt",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "dependencies/HiCanu_2.1_HG002_GRCh38_difficult_medical_gene_smallvar_benchmark_v0.02.03_intersected_subtract_FPs_repeatexpanded_slop50_manual_curation_sites.tsv_manual_curation_sites.txt",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/dependencies/HiCanu_2.1_HG002_GRCh38_difficult_medical_gene_smallvar_benchmark_v0.02.03_intersected_subtract_FPs_repeatexpanded_slop50_manual_curation_sites.tsv_manual_curation_sites.txt",
      "mediaType": "text/plain"
    },
    {
      "@id": "cmps/dependencies/GRCh38_hifiasm_error.bed",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "dependencies/GRCh38_hifiasm_error.bed",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/dependencies/GRCh38_hifiasm_error.bed",
      "mediaType": "application/octet-stream"
    },
    {
      "@id": "cmps/dependencies/combined curation responses from benchmarking with sm variant v0.02.03 - GRCh37andGRCh38.tsv",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "dependencies/combined curation responses from benchmarking with sm variant v0.02.03 - GRCh37andGRCh38.tsv",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/dependencies/combined%20curation%20responses%20from%20benchmarking%20with%20sm%20variant%20v0.02.03%20-%20GRCh37andGRCh38.tsv",
      "mediaType": "text/tab-separated-values"
    },
    {
      "@id": "cmps/hifiasm-assembly",
      "@type": [
        "nrdp:Subcollection"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/Subcollection"
      ],
      "filepath": "hifiasm-assembly"
    },
    {
      "@id": "cmps/hifiasm-assembly/HG002-v0.11.mat.fa.gz",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "hifiasm-assembly/HG002-v0.11.mat.fa.gz",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/hifiasm-assembly/HG002-v0.11.mat.fa.gz",
      "mediaType": "application/gzip"
    },
    {
      "@id": "cmps/hifiasm-assembly/HG002-v0.11.pat.fa.gz",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "hifiasm-assembly/HG002-v0.11.pat.fa.gz",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/hifiasm-assembly/HG002-v0.11.pat.fa.gz",
      "mediaType": "application/gzip"
    },
    {
      "@id": "cmps/hifiasm-assembly/HG002-v0.11.mat.gff.gz",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "hifiasm-assembly/HG002-v0.11.mat.gff.gz",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/hifiasm-assembly/HG002-v0.11.mat.gff.gz",
      "mediaType": "application/gzip"
    },
    {
      "@id": "cmps/hifiasm-assembly/HG002-v0.11.pat.gff.gz",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "hifiasm-assembly/HG002-v0.11.pat.gff.gz",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/hifiasm-assembly/HG002-v0.11.pat.gff.gz",
      "mediaType": "application/gzip"
    },
    {
      "@id": "cmps/chksum.md5",
      "@type": [
        "nrdp:DataFile",
        "nrdp:DownloadableFile",
        "dcat:Distribution"
      ],
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/pub/v0.7#/definitions/DataFile"
      ],
      "filepath": "chksum.md5",
      "downloadURL": "https://data.nist.gov/od/ds/ark:/88434/mds2-2475/chksum.md5",
      "mediaType": "application/octet-stream"
    }
  ],
  "_editStatus": "done",
  "references": [
    {
      "@type": [
        "npg:Document"
      ],
      "@id": "#ref:10.1101/2021.06.07.444885",
      "refType": "References",
      "location": "https://doi.org/10.1101/2021.06.07.444885",
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/bib/v0.7#/definitions/DCiteReference"
      ],
      "title": "Towards a Comprehensive Variation Benchmark for Challenging Medically-Relevant Autosomal Genes",
      "issued": "2021-06-07",
      "citation": "Wagner, J., Olson, N. D., Harris, L., McDaniel, J., Cheng, H., Fungtammasan, A., \u00e2\u0080\u00a6 Sedlazeck, F. J. (2021). Towards a Comprehensive Variation Benchmark for Challenging Medically-Relevant Autosomal Genes. doi:10.1101/2021.06.07.444885\n"
    },
    {
      "@type": [
        "npg:Document"
      ],
      "@id": "#ref:10.1038/s41592-020-01056-5",
      "refType": "References",
      "location": "https://doi.org/10.1038/s41592-020-01056-5",
      "_extensionSchemas": [
        "https://data.nist.gov/od/dm/nerdm-schema/bib/v0.7#/definitions/DCiteReference"
      ],
      "title": "Haplotype-resolved de novo assembly using phased assembly graphs with hifiasm",
      "issued": "2021-02",
      "citation": "Cheng, H., Concepcion, G. T., Feng, X., Zhang, H., & Li, H. (2021). Haplotype-resolved de novo assembly using phased assembly graphs with hifiasm. Nature Methods, 18(2), 170\u00e2\u0080\u0093175. doi:10.1038/s41592-020-01056-5\n"
    }
  ],
  "authors": [
    {
      "familyName": "Wagner",
      "fn": "Justin  Wagner",
      "givenName": "Justin",
      "middleName": "",
      "affiliation": [
        {
          "title": "National Institute of Standards and Technology",
          "subunits": [
            "Biosystems and Biomaterials Division"
          ],
          "@type": "org:Organization",
          "@id": "ror:05xpvk416"
        }
      ],
      "orcid": "",
      "@type": "foaf:Person"
    },
    {
      "familyName": "Olson",
      "fn": "Nathan D Olson",
      "givenName": "Nathan",
      "middleName": "D",
      "affiliation": [
        {
          "title": "National Institute of Standards and Technology",
          "subunits": [
            "Biosystems and Biomaterials Division"
          ],
          "@type": "org:Organization",
          "@id": "ror:05xpvk416"
        }
      ],
      "orcid": "0000-0003-2585-3037",
      "@type": "foaf:Person"
    },
    {
      "familyName": "McDaniel",
      "fn": "Jennifer  McDaniel",
      "givenName": "Jennifer",
      "middleName": "",
      "affiliation": [
        {
          "title": "National Institute of Standards and Technology",
          "subunits": [
            "Biosystems and Biomaterials Division"
          ],
          "@type": "org:Organization",
          "@id": "ror:05xpvk416"
        }
      ],
      "orcid": "",
      "@type": "foaf:Person"
    },
    {
      "familyName": "Zook",
      "fn": "Justin M Zook",
      "givenName": "Justin",
      "middleName": "M",
      "affiliation": [
        {
          "title": "National Institute of Standards and Technology",
          "subunits": [
            "Biosystems and Biomaterials Division"
          ],
          "@type": "org:Organization",
          "@id": "ror:05xpvk416"
        }
      ],
      "orcid": "0000-0003-2309-8402",
      "@type": "foaf:Person"
    }
  ],
  "releaseHistory": {
    "@id": "ark:/88434/mds2-2475.rel",
    "@type": [
      "nrdr:ReleaseHistory"
    ],
    "hasRelease": [
      {
        "version": "1.0.1",
        "issued": "2021-09-29",
        "@id": "ark:/88434/mds2-2475/pdr:v/1.0.1",
        "location": "https://data.nist.gov/od/id/ark:/88434/mds2-2475/pdr:v/1.0.1",
        "description": "metadata update"
      }
    ]
  },
  "annotated": "2021-10-21T20:24:15.279622",
  "issued": null
}