File Info

Filename
1029_BTOJ-T1-TDNA-1_A23WJ5GLT4_4_vs_1029_BTOJ-N1-BDNA-1_B23KGCJLT4_1.summary.json
Full Path
s3://natera-platform-sandbox/pipeline-outputs/aih_dev/altera_inhouse_dna/hmnz_cgp_dna_exp0035__70824045--20260606-022813/1029_BTOJ-T1-TDNA-1_A23WJ5GLT4_4_vs_1029_BTOJ-N1-BDNA-1_B23KGCJLT4_1/1029_BTOJ-T1-TDNA-1_A23WJ5GLT4_4_vs_1029_BTOJ-N1-BDNA-1_B23KGCJLT4_1.summary.json
Size
2.9 KB
Published
Jun 05, 2026 7:43 PM
{
  "sequencing_library_id": "1029_BTOJ-T1-TDNA-1_A23WJ5GLT4_4",
  "secondary_sequencing_library_id": "1029_BTOJ-N1-BDNA-1_B23KGCJLT4_1",
  "data_source": "altera_inhouse_dna",
  "harmonized_software_version": "70824045524a55c23c199744bf0f4cdef64d70d6",
  "software_version": "44c19e3df8f656f58cb9ee7cf60c60a25f789383",
  "harmonized_s3_path": "s3://natera-platform-sandbox/pipeline-outputs/aih_dev/altera_inhouse_dna/hmnz_cgp_dna_exp0035__70824045--20260606-022813",
  "s3_path": "s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0035/tools__44c19e3d--20260605-213512",
  "s3_path_params": "s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0035/tools__44c19e3d--20260605-213512/pipeline_info/params_2026-06-05_21-36-20.json",
  "s3_path_qc": null,
  "altera_exact_report_details": null,
  "qc": {
    "calculated_sex": "XY",
    "calculated_sex_secondary": "XX",
    "tumor_normal_correlation": 0.9586,
    "tumor_contamination": 22.851,
    "normal_contamination": 0.06,
    "tso500_wetlab_pass": null,
    "tso500_seq_pass": null
  },
  "harmonized_input_file_status": {
    "snv_somatic": true,
    "snv_somatic_phased": true,
    "snv_germline": true,
    "cnv": true,
    "sv": true,
    "fusion": false,
    "splice": false,
    "tmb": true,
    "msi": true,
    "hrd_scarhrd": true,
    "hrd_tih": true,
    "hla": true,
    "chip": true
  },
  "harmonized_summary_stats": {
    "somatic_snv_num": 1353,
    "somatic_indel_num": 109,
    "somatic_hotspot_num": 1,
    "somatic_variant_phased_num": 46,
    "somatic_cnv_num": 9007,
    "somatic_cnv_del_num": 6715,
    "somatic_cnv_amp_num": 2292,
    "somatic_cnv_segment_num": 106,
    "somatic_sv_fusion_num": 102,
    "somatic_sv_fusion_actionable_num": 5,
    "chip_variant_num": 32270,
    "germline_snv_num": 28441,
    "germline_indel_num": 2056,
    "germline_snv_hrr_num": 115,
    "germline_indel_hrr_num": 40,
    "germline_cnv_hrr_num": null,
    "tumor_purity": 0.331493926741354,
    "tumor_ploidy": 2.64475980721103,
    "scarhrd_score": 44.0,
    "scarhrd_status": "HRD_pos",
    "tih_hrd_score": 0.459532709885613,
    "tih_hrd_status": "HRD_pos",
    "tso500_gis": null,
    "tso500_hrd_status": null,
    "msi_status": "MSI-H",
    "msi_score": 66.85,
    "tmb_status": "HIGH",
    "tmb_score": 11.0689,
    "rna_fusion_total_num": null,
    "rna_fusion_filtered_num": null,
    "tso500_overlap_rna_fusion_total_num": null,
    "rna_fusion_actionable_num": null,
    "rna_fusion_filtered_and_actionable_num": null,
    "tso500_overlap_rna_fusion_filtered_num": null,
    "rna_exon_skipping_total_num": null,
    "rna_exon_skipping_actionable_num": null,
    "tso500_overlap_somatic_snv_num": 34,
    "tso500_overlap_somatic_indel_num": 1,
    "tso500_overlap_somatic_hotspot_num": 1,
    "tso500_overlap_somatic_variant_phased_num": 0,
    "tso500_overlap_somatic_cnv_num": 271,
    "tso500_overlap_somatic_cnv_del_num": 218,
    "tso500_overlap_somatic_cnv_amp_num": 53
  }
}