{ "sequencing_library_id": "1136_7L-T1-TDNA-1_A23WGJTLT4_5", "secondary_sequencing_library_id": "1136_7L-N1-BDNA-1_A237CFYLT3_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_exp0034__70824045--20260606-020246", "s3_path": "s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0034/tools__44c19e3d--20260605-212233", "s3_path_params": "s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0034/tools__44c19e3d--20260605-212233/pipeline_info/params_2026-06-05_21-24-19.json", "s3_path_qc": null, "altera_exact_report_details": null, "qc": { "calculated_sex": "XY", "calculated_sex_secondary": "XY", "tumor_normal_correlation": 0.9835, "tumor_contamination": 0.062, "normal_contamination": 0.05, "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": 376, "somatic_indel_num": 3, "somatic_hotspot_num": 0, "somatic_variant_phased_num": 89, "somatic_cnv_num": 5400, "somatic_cnv_del_num": 787, "somatic_cnv_amp_num": 4613, "somatic_cnv_segment_num": 342, "somatic_sv_fusion_num": 86, "somatic_sv_fusion_actionable_num": 1, "chip_variant_num": 35056, "germline_snv_num": 28293, "germline_indel_num": 2036, "germline_snv_hrr_num": 134, "germline_indel_hrr_num": 41, "germline_cnv_hrr_num": null, "tumor_purity": null, "tumor_ploidy": 2.0, "scarhrd_score": 14.0, "scarhrd_status": "HRD_neg", "tih_hrd_score": 0.437753212351834, "tih_hrd_status": "HRD_pos", "tso500_gis": null, "tso500_hrd_status": null, "msi_status": "MSI-L", "msi_score": 23.16, "tmb_status": "LOW", "tmb_score": 0.0586, "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": 1, "tso500_overlap_somatic_indel_num": 0, "tso500_overlap_somatic_hotspot_num": 0, "tso500_overlap_somatic_variant_phased_num": 2, "tso500_overlap_somatic_cnv_num": 194, "tso500_overlap_somatic_cnv_del_num": 22, "tso500_overlap_somatic_cnv_amp_num": 172 } }