File Info

Filename
1173_PCB.summary.json
Full Path
s3://natera-platform-sandbox/platform-users/rsrivas/pipeline_runs/somatic_sv_dev/01_altera_exact_survey_feb26/Harmonize_dspe1173__b003992--20260226-165137/1173_PCB/1173_PCB.summary.json
Size
3.1 KB
Workflow Run
Harmonize_dspe1173
Published
Feb 26, 2026 9:02 AM
{
  "sequencing_library_id": "1173_PCB",
  "secondary_sequencing_library_id": null,
  "data_source": "altera_exact",
  "harmonized_software_version": "b00399295ad010468e0383b30ecf02fc958110a9",
  "software_version": null,
  "harmonized_s3_path": "s3://natera-platform-sandbox/platform-users/rsrivas/pipeline_runs/somatic_sv_dev/01_altera_exact_survey_feb26/Harmonize_dspe1173__b003992--20260226-165137",
  "s3_path": null,
  "s3_path_params": null,
  "altera_exact_report_details": {
    "original_api_version": "6.0.1",
    "original_pipeline_version": "NG2-LDT 1.19.0",
    "reportable": {
      "snv_indel": {
        "count": 1,
        "variants": {
          "BRCA1": [
            "Frameshift"
          ]
        }
      },
      "cnv": {
        "count": 0,
        "variants": {}
      },
      "sv": {
        "count": 0,
        "variants": {}
      },
      "fusion": {
        "count": 0,
        "variants": {}
      },
      "biomarkers": {
        "tmb": {
          "value": 0.7931135231995938,
          "category": "low"
        },
        "msi": {}
      }
    },
    "vus_count": 43
  },
  "qc": {
    "calculated_sex": null,
    "calculated_sex_secondary": null,
    "tumor_normal_correlation": null,
    "tumor_contamination": null,
    "normal_contamination": null,
    "tso500_wetlab_pass": null,
    "tso500_seq_pass": null
  },
  "harmonized_input_file_status": {
    "snv_somatic": true,
    "snv_somatic_phased": false,
    "snv_germline": false,
    "cnv": true,
    "sv": true,
    "fusion": true,
    "splice": true,
    "tmb": true,
    "msi": false,
    "hrd_scarHRD": false,
    "hrd_tih": false,
    "hla": false,
    "chip": false
  },
  "harmonized_summary_stats": {
    "somatic_snv_num": 33,
    "somatic_indel_num": 2,
    "somatic_hotspot_num": 0,
    "somatic_variant_phased_num": null,
    "somatic_cnv_num": 0,
    "somatic_cnv_del_num": 0,
    "somatic_cnv_amp_num": 0,
    "somatic_cnv_segment_num": null,
    "somatic_sv_fusion_num": 1,
    "somatic_sv_fusion_actionable_num": 0,
    "chip_variant_num": null,
    "germline_snv_num": null,
    "germline_indel_num": null,
    "germline_snv_hrr_num": null,
    "germline_indel_hrr_num": null,
    "germline_cnv_hrr_num": null,
    "tumor_purity": null,
    "tumor_ploidy": null,
    "scarHRD_score": null,
    "scarHRD_status": null,
    "TiH_HRD_score": null,
    "TiH_HRD_status": null,
    "tso500_gis": null,
    "tso500_hrd_status": null,
    "msi_status": null,
    "msi_score": null,
    "tmb_status": "low",
    "tmb_score": 0.7931135231995938,
    "rna_fusion_total_num": 1,
    "rna_fusion_filtered_num": 1,
    "tso500_overlap_rna_fusion_total_num": 0,
    "rna_fusion_actionable_num": 0,
    "rna_fusion_filtered_and_actionable_num": null,
    "tso500_overlap_rna_fusion_filtered_num": null,
    "rna_exon_skipping_total_num": 0,
    "rna_exon_skipping_actionable_num": 0,
    "tso500_overlap_somatic_snv_num": 1,
    "tso500_overlap_somatic_indel_num": 0,
    "tso500_overlap_somatic_hotspot_num": 0,
    "tso500_overlap_somatic_variant_phased_num": null,
    "tso500_overlap_somatic_cnv_num": 0,
    "tso500_overlap_somatic_cnv_del_num": 0,
    "tso500_overlap_somatic_cnv_amp_num": 0
  }
}