{ "artifact_type": "empirical_public_advanced_disease_grouped_stress_test", "clinical_claim": false, "performance_scope": "Post-hoc exploratory analysis of advanced prostate and metastatic breast cancer; donor-grouped internal resampling; severely batch-confounded; not MCED, early-detection, screening, external-validation, or clinical performance.", "dataset": { "name": "FinaleMe ULP-WGS processed fragment-coordinate cohort", "zenodo_record": "7779198", "paper_doi": "10.1038/s41467-024-47196-6", "sample_records": 77, "patient_id_groups": 42, "sample_level_cancers": 65, "sample_level_noncancers": 12, "donor_level_cancers": 30, "donor_level_noncancers": 12, "samples_per_donor_minimum": 1, "samples_per_donor_median": 1.0, "samples_per_donor_maximum": 10, "total_input_records": 250308232, "total_coordinate_records_passing_canonical_autosome_mapq_length_filters": 221792015, "covered_bins_per_sample_minimum": 567, "covered_bins_per_sample_maximum": 567, "summary_sha256": "d129e87d0f10355840d5fa10f749ca058e4cd3defe9cdbd994942c1265b59ddc", "manifest_sha256": "661c52fa89ab57d77c23e9cd0c6a5d53b00c476914a8a107c0a2c50f944337d7", "sources_sha256": "5494710ced0cec2f47c65d2e348ef32a29f9b09850534fd1b054c9574492642c", "extraction_provenance_sha256": "80b320a3fcc6a4de99b7e3544595f3e86b7097b9f66b14e8b42c0d646287abaf", "archive_md5": "a98744886e648d8b02d1c914dd4548b0", "archive_sha256": "d06852eb556822c1c7653972c312c18d151eeced236920ce4e9ed2f6c6c0e6dc", "input_level": "authors' processed b37 plasma fragment coordinates", "raw_fastq_used": false }, "feature_contract": { "bins": "real_data/assets/human_g1k_v37.autosomes.5mb_bins.tsv", "bins_sha256": "53e5b08377b6dec52f54311d5d6b70fc9dd9a8296cb2d46c633ec80a60b76213", "bin_count": 589, "canonical_contigs": [ "chr1", "chr2", "chr3", "chr4", "chr5", "chr6", "chr7", "chr8", "chr9", "chr10", "chr11", "chr12", "chr13", "chr14", "chr15", "chr16", "chr17", "chr18", "chr19", "chr20", "chr21", "chr22" ], "min_mapq": 30, "min_fragment_length": 50, "max_fragment_length": 1000, "short_fragment_definition": [ 100, 150 ], "long_fragment_definition": [ 151, 220 ], "gc_mappability_annotation": "neutral placeholders; not reference-corrected", "model_features": [ "global_short_long_log_ratio", "coverage_logratio_mad", "median_fragment_length" ], "global_ratio_definition": "log((global 100-150 bp + 0.5)/(global 151-220 bp + 0.5))", "coverage_dispersion_definition": "MAD across all 589 autosomal 5 Mb coverage log ratios; 22 assembly-gap/centromeric bins have zero counts in every sample", "donor_aggregation": "componentwise median across all sample records for patient_id", "duplicate_state": "unknown", "motifs_used": false }, "posthoc_advanced_disease_batch_confounded_donor_aggregated_lodo": { "status": "computed_internal_grouped_cv; confounded_not_generalization", "performance_scope": "Post-hoc exploratory analysis of advanced prostate and metastatic breast cancer; donor-grouped internal resampling; severely batch-confounded; not MCED, early-detection, screening, external-validation, or clinical performance.", "model": "fixed-C ridge logistic with fold-fitted scaling; no tuning", "posthoc_exploratory_roc_auc": 0.9694444444444443, "conditional_stratified_donor_bootstrap_of_fixed_oof_auc_95ci": [ 0.9166666666666666, 1.0 ], "posthoc_exploratory_accuracy_at_zero_logit": 0.8095238095238095, "fold_audit": [ { "fold": 0, "validation_donor": "01115_248", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 1, "validation_donor": "01115_264", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 2, "validation_donor": "01115_372", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 3, "validation_donor": "01115_463", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 4, "validation_donor": "01115_468", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 5, "validation_donor": "01115_525", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 6, "validation_donor": "01115_531", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 7, "validation_donor": "01115_557", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 8, "validation_donor": "01115_606", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 9, "validation_donor": "01115_661", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 10, "validation_donor": "09204_1054", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 11, "validation_donor": "09204_1056", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 12, "validation_donor": "09204_1071", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 13, "validation_donor": "09204_189", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 14, "validation_donor": "09204_429", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 15, "validation_donor": "09204_557", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 16, "validation_donor": "09204_622", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 17, "validation_donor": "09204_732", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 18, "validation_donor": "09204_826", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 19, "validation_donor": "09204_997", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 20, "validation_donor": "12024_17", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 21, "validation_donor": "12431_24", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 22, "validation_donor": "12431_27", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 23, "validation_donor": "13449_44", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 24, "validation_donor": "14230_1", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 25, "validation_donor": "14230_14", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 26, "validation_donor": "14230_20", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 27, "validation_donor": "BCTC_28", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 28, "validation_donor": "GC1609_972", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 29, "validation_donor": "GC1609_985", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 30, "validation_donor": "HD12", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 31, "validation_donor": "HD2", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 32, "validation_donor": "HD28", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 33, "validation_donor": "HD29", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 34, "validation_donor": "HD30", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 35, "validation_donor": "HD_38", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 36, "validation_donor": "HD_39", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 37, "validation_donor": "HD_40", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 38, "validation_donor": "HD_41", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 39, "validation_donor": "HD_42", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 40, "validation_donor": "HD_45", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 41, "validation_donor": "HD_46", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 } ] }, "posthoc_advanced_disease_batch_confounded_sample_weighted_grouped_sensitivity": { "performance_scope": "Post-hoc exploratory analysis of advanced prostate and metastatic breast cancer; donor-grouped internal resampling; severely batch-confounded; not MCED, early-detection, screening, external-validation, or clinical performance.", "warning": "Training is sample-weighted, so donors with repeat samples receive more weight; donor-aggregated analysis is primary.", "posthoc_exploratory_sample_level_roc_auc": 0.9500000000000001, "posthoc_exploratory_donor_auc_after_median_oof_score_aggregation": 0.9666666666666666, "fold_audit": [ { "fold": 0, "validation_donor": "01115_248", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 1, "validation_donor": "01115_264", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 2, "validation_donor": "01115_372", "validation_samples": 5, "training_donors": 41, "training_samples": 72, "training_class_counts": { "0": 12, "1": 60 }, "overlap_donor_count": 0 }, { "fold": 3, "validation_donor": "01115_463", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 4, "validation_donor": "01115_468", "validation_samples": 4, "training_donors": 41, "training_samples": 73, "training_class_counts": { "0": 12, "1": 61 }, "overlap_donor_count": 0 }, { "fold": 5, "validation_donor": "01115_525", "validation_samples": 2, "training_donors": 41, "training_samples": 75, "training_class_counts": { "0": 12, "1": 63 }, "overlap_donor_count": 0 }, { "fold": 6, "validation_donor": "01115_531", "validation_samples": 2, "training_donors": 41, "training_samples": 75, "training_class_counts": { "0": 12, "1": 63 }, "overlap_donor_count": 0 }, { "fold": 7, "validation_donor": "01115_557", "validation_samples": 10, "training_donors": 41, "training_samples": 67, "training_class_counts": { "0": 12, "1": 55 }, "overlap_donor_count": 0 }, { "fold": 8, "validation_donor": "01115_606", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 9, "validation_donor": "01115_661", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 10, "validation_donor": "09204_1054", "validation_samples": 2, "training_donors": 41, "training_samples": 75, "training_class_counts": { "0": 12, "1": 63 }, "overlap_donor_count": 0 }, { "fold": 11, "validation_donor": "09204_1056", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 12, "validation_donor": "09204_1071", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 13, "validation_donor": "09204_189", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 14, "validation_donor": "09204_429", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 15, "validation_donor": "09204_557", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 16, "validation_donor": "09204_622", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 17, "validation_donor": "09204_732", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 18, "validation_donor": "09204_826", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 19, "validation_donor": "09204_997", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 20, "validation_donor": "12024_17", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 21, "validation_donor": "12431_24", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 22, "validation_donor": "12431_27", "validation_samples": 9, "training_donors": 41, "training_samples": 68, "training_class_counts": { "0": 12, "1": 56 }, "overlap_donor_count": 0 }, { "fold": 23, "validation_donor": "13449_44", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 24, "validation_donor": "14230_1", "validation_samples": 5, "training_donors": 41, "training_samples": 72, "training_class_counts": { "0": 12, "1": 60 }, "overlap_donor_count": 0 }, { "fold": 25, "validation_donor": "14230_14", "validation_samples": 5, "training_donors": 41, "training_samples": 72, "training_class_counts": { "0": 12, "1": 60 }, "overlap_donor_count": 0 }, { "fold": 26, "validation_donor": "14230_20", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 27, "validation_donor": "BCTC_28", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 28, "validation_donor": "GC1609_972", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 29, "validation_donor": "GC1609_985", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 30, "validation_donor": "HD12", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 }, { "fold": 31, "validation_donor": "HD2", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 }, { "fold": 32, "validation_donor": "HD28", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 }, { "fold": 33, "validation_donor": "HD29", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 }, { "fold": 34, "validation_donor": "HD30", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 }, { "fold": 35, "validation_donor": "HD_38", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 }, { "fold": 36, "validation_donor": "HD_39", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 }, { "fold": 37, "validation_donor": "HD_40", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 }, { "fold": 38, "validation_donor": "HD_41", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 }, { "fold": 39, "validation_donor": "HD_42", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 }, { "fold": 40, "validation_donor": "HD_45", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 }, { "fold": 41, "validation_donor": "HD_46", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 } ] }, "exploratory_single_scores_not_preregistered_at_donor_level": { "global_short_long_log_ratio": { "performance_scope": "Post-hoc exploratory analysis of advanced prostate and metastatic breast cancer; donor-grouped internal resampling; severely batch-confounded; not MCED, early-detection, screening, external-validation, or clinical performance.", "posthoc_exploratory_roc_auc": 0.9611111111111111 }, "coverage_logratio_mad": { "performance_scope": "Post-hoc exploratory analysis of advanced prostate and metastatic breast cancer; donor-grouped internal resampling; severely batch-confounded; not MCED, early-detection, screening, external-validation, or clinical performance.", "posthoc_exploratory_roc_auc": 0.8444444444444444 }, "negative_median_fragment_length": { "performance_scope": "Post-hoc exploratory analysis of advanced prostate and metastatic breast cancer; donor-grouped internal resampling; severely batch-confounded; not MCED, early-detection, screening, external-validation, or clinical performance.", "posthoc_exploratory_roc_auc": 0.9694444444444444 } }, "donor_feature_summaries": { "global_short_long_log_ratio": { "cancer_median": -0.975502187517011, "noncancer_median": -1.6236827959808913, "cancer_minus_noncancer_median": 0.6481806084638803 }, "coverage_logratio_mad": { "cancer_median": 0.12820332533153556, "noncancer_median": 0.0706539827645738, "cancer_minus_noncancer_median": 0.05754934256696176 }, "median_fragment_length": { "cancer_median": 165.0, "noncancer_median": 170.5, "cancer_minus_noncancer_median": -5.5 } }, "negative_controls": { "performance_scope": "Post-hoc exploratory analysis of advanced prostate and metastatic breast cancer; donor-grouped internal resampling; severely batch-confounded; not MCED, early-detection, screening, external-validation, or clinical performance.", "batch_only_donor_incidence_lodo_auc": 0.9638888888888888, "batch_only_sample_grouped_auc": 0.8999999999999999, "batch_only_donor_auc_after_sample_score_aggregation": 0.9222222222222222, "usable_coordinate_record_depth_only_donor_lodo_auc": 0.75, "batch_only_donor_fold_audit": [ { "fold": 0, "validation_donor": "01115_248", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 1, "validation_donor": "01115_264", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 2, "validation_donor": "01115_372", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 3, "validation_donor": "01115_463", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 4, "validation_donor": "01115_468", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 5, "validation_donor": "01115_525", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 6, "validation_donor": "01115_531", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 7, "validation_donor": "01115_557", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 8, "validation_donor": "01115_606", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 9, "validation_donor": "01115_661", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 10, "validation_donor": "09204_1054", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 11, "validation_donor": "09204_1056", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 12, "validation_donor": "09204_1071", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 13, "validation_donor": "09204_189", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 14, "validation_donor": "09204_429", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 15, "validation_donor": "09204_557", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 16, "validation_donor": "09204_622", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 17, "validation_donor": "09204_732", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 18, "validation_donor": "09204_826", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 19, "validation_donor": "09204_997", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 20, "validation_donor": "12024_17", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 21, "validation_donor": "12431_24", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 22, "validation_donor": "12431_27", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 23, "validation_donor": "13449_44", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 24, "validation_donor": "14230_1", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 25, "validation_donor": "14230_14", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 26, "validation_donor": "14230_20", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 27, "validation_donor": "BCTC_28", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 28, "validation_donor": "GC1609_972", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 29, "validation_donor": "GC1609_985", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 30, "validation_donor": "HD12", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 31, "validation_donor": "HD2", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 32, "validation_donor": "HD28", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 33, "validation_donor": "HD29", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 34, "validation_donor": "HD30", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 35, "validation_donor": "HD_38", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 36, "validation_donor": "HD_39", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 37, "validation_donor": "HD_40", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 38, "validation_donor": "HD_41", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 39, "validation_donor": "HD_42", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 40, "validation_donor": "HD_45", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 41, "validation_donor": "HD_46", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 } ], "batch_only_sample_fold_audit": [ { "fold": 0, "validation_donor": "01115_248", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 1, "validation_donor": "01115_264", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 2, "validation_donor": "01115_372", "validation_samples": 5, "training_donors": 41, "training_samples": 72, "training_class_counts": { "0": 12, "1": 60 }, "overlap_donor_count": 0 }, { "fold": 3, "validation_donor": "01115_463", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 4, "validation_donor": "01115_468", "validation_samples": 4, "training_donors": 41, "training_samples": 73, "training_class_counts": { "0": 12, "1": 61 }, "overlap_donor_count": 0 }, { "fold": 5, "validation_donor": "01115_525", "validation_samples": 2, "training_donors": 41, "training_samples": 75, "training_class_counts": { "0": 12, "1": 63 }, "overlap_donor_count": 0 }, { "fold": 6, "validation_donor": "01115_531", "validation_samples": 2, "training_donors": 41, "training_samples": 75, "training_class_counts": { "0": 12, "1": 63 }, "overlap_donor_count": 0 }, { "fold": 7, "validation_donor": "01115_557", "validation_samples": 10, "training_donors": 41, "training_samples": 67, "training_class_counts": { "0": 12, "1": 55 }, "overlap_donor_count": 0 }, { "fold": 8, "validation_donor": "01115_606", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 9, "validation_donor": "01115_661", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 10, "validation_donor": "09204_1054", "validation_samples": 2, "training_donors": 41, "training_samples": 75, "training_class_counts": { "0": 12, "1": 63 }, "overlap_donor_count": 0 }, { "fold": 11, "validation_donor": "09204_1056", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 12, "validation_donor": "09204_1071", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 13, "validation_donor": "09204_189", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 14, "validation_donor": "09204_429", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 15, "validation_donor": "09204_557", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 16, "validation_donor": "09204_622", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 17, "validation_donor": "09204_732", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 18, "validation_donor": "09204_826", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 19, "validation_donor": "09204_997", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 20, "validation_donor": "12024_17", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 21, "validation_donor": "12431_24", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 22, "validation_donor": "12431_27", "validation_samples": 9, "training_donors": 41, "training_samples": 68, "training_class_counts": { "0": 12, "1": 56 }, "overlap_donor_count": 0 }, { "fold": 23, "validation_donor": "13449_44", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 24, "validation_donor": "14230_1", "validation_samples": 5, "training_donors": 41, "training_samples": 72, "training_class_counts": { "0": 12, "1": 60 }, "overlap_donor_count": 0 }, { "fold": 25, "validation_donor": "14230_14", "validation_samples": 5, "training_donors": 41, "training_samples": 72, "training_class_counts": { "0": 12, "1": 60 }, "overlap_donor_count": 0 }, { "fold": 26, "validation_donor": "14230_20", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 27, "validation_donor": "BCTC_28", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 28, "validation_donor": "GC1609_972", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 29, "validation_donor": "GC1609_985", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 12, "1": 64 }, "overlap_donor_count": 0 }, { "fold": 30, "validation_donor": "HD12", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 }, { "fold": 31, "validation_donor": "HD2", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 }, { "fold": 32, "validation_donor": "HD28", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 }, { "fold": 33, "validation_donor": "HD29", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 }, { "fold": 34, "validation_donor": "HD30", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 }, { "fold": 35, "validation_donor": "HD_38", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 }, { "fold": 36, "validation_donor": "HD_39", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 }, { "fold": 37, "validation_donor": "HD_40", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 }, { "fold": 38, "validation_donor": "HD_41", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 }, { "fold": 39, "validation_donor": "HD_42", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 }, { "fold": 40, "validation_donor": "HD_45", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 }, { "fold": 41, "validation_donor": "HD_46", "validation_samples": 1, "training_donors": 41, "training_samples": 76, "training_class_counts": { "0": 11, "1": 65 }, "overlap_donor_count": 0 } ], "depth_only_fold_audit": [ { "fold": 0, "validation_donor": "01115_248", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 1, "validation_donor": "01115_264", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 2, "validation_donor": "01115_372", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 3, "validation_donor": "01115_463", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 4, "validation_donor": "01115_468", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 5, "validation_donor": "01115_525", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 6, "validation_donor": "01115_531", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 7, "validation_donor": "01115_557", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 8, "validation_donor": "01115_606", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 9, "validation_donor": "01115_661", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 10, "validation_donor": "09204_1054", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 11, "validation_donor": "09204_1056", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 12, "validation_donor": "09204_1071", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 13, "validation_donor": "09204_189", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 14, "validation_donor": "09204_429", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 15, "validation_donor": "09204_557", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 16, "validation_donor": "09204_622", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 17, "validation_donor": "09204_732", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 18, "validation_donor": "09204_826", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 19, "validation_donor": "09204_997", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 20, "validation_donor": "12024_17", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 21, "validation_donor": "12431_24", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 22, "validation_donor": "12431_27", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 23, "validation_donor": "13449_44", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 24, "validation_donor": "14230_1", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 25, "validation_donor": "14230_14", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 26, "validation_donor": "14230_20", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 27, "validation_donor": "BCTC_28", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 28, "validation_donor": "GC1609_972", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 29, "validation_donor": "GC1609_985", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 12, "1": 29 }, "overlap_donor_count": 0 }, { "fold": 30, "validation_donor": "HD12", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 31, "validation_donor": "HD2", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 32, "validation_donor": "HD28", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 33, "validation_donor": "HD29", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 34, "validation_donor": "HD30", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 35, "validation_donor": "HD_38", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 36, "validation_donor": "HD_39", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 37, "validation_donor": "HD_40", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 38, "validation_donor": "HD_41", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 39, "validation_donor": "HD_42", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 40, "validation_donor": "HD_45", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 }, { "fold": 41, "validation_donor": "HD_46", "validation_samples": 1, "training_donors": 41, "training_samples": 41, "training_class_counts": { "0": 11, "1": 30 }, "overlap_donor_count": 0 } ] }, "batch_sensitivity_audit": { "performance_scope": "Post-hoc exploratory analysis of advanced prostate and metastatic breast cancer; donor-grouped internal resampling; severely batch-confounded; not MCED, early-detection, screening, external-validation, or clinical performance.", "batch_count": 23, "mixed_class_batches": [ "8", "10" ], "single_class_batch_count": 21, "distribution": [ { "batch_id": "0", "sample_count": 3, "donor_count": 2, "cancer_samples": 3, "cancer_donors": 2, "noncancer_samples": 0, "noncancer_donors": 0, "contains_both_classes": false }, { "batch_id": "1", "sample_count": 4, "donor_count": 3, "cancer_samples": 4, "cancer_donors": 3, "noncancer_samples": 0, "noncancer_donors": 0, "contains_both_classes": false }, { "batch_id": "2", "sample_count": 2, "donor_count": 1, "cancer_samples": 2, "cancer_donors": 1, "noncancer_samples": 0, "noncancer_donors": 0, "contains_both_classes": false }, { "batch_id": "3", "sample_count": 4, "donor_count": 1, "cancer_samples": 4, "cancer_donors": 1, "noncancer_samples": 0, "noncancer_donors": 0, "contains_both_classes": false }, { "batch_id": "4", "sample_count": 3, "donor_count": 3, "cancer_samples": 3, "cancer_donors": 3, "noncancer_samples": 0, "noncancer_donors": 0, "contains_both_classes": false }, { "batch_id": "5", "sample_count": 4, "donor_count": 4, "cancer_samples": 4, "cancer_donors": 4, "noncancer_samples": 0, "noncancer_donors": 0, "contains_both_classes": false }, { "batch_id": "6", "sample_count": 4, "donor_count": 2, "cancer_samples": 4, "cancer_donors": 2, "noncancer_samples": 0, "noncancer_donors": 0, "contains_both_classes": false }, { "batch_id": "7", "sample_count": 5, "donor_count": 1, "cancer_samples": 5, "cancer_donors": 1, "noncancer_samples": 0, "noncancer_donors": 0, "contains_both_classes": false }, { "batch_id": "8", "sample_count": 3, "donor_count": 3, "cancer_samples": 2, "cancer_donors": 2, "noncancer_samples": 1, "noncancer_donors": 1, "contains_both_classes": true }, { "batch_id": "9", "sample_count": 2, "donor_count": 2, "cancer_samples": 2, "cancer_donors": 2, "noncancer_samples": 0, "noncancer_donors": 0, "contains_both_classes": false }, { "batch_id": "10", "sample_count": 4, "donor_count": 4, "cancer_samples": 1, "cancer_donors": 1, "noncancer_samples": 3, "noncancer_donors": 3, "contains_both_classes": true }, { "batch_id": "11", "sample_count": 1, "donor_count": 1, "cancer_samples": 1, "cancer_donors": 1, "noncancer_samples": 0, "noncancer_donors": 0, "contains_both_classes": false }, { "batch_id": "12", "sample_count": 6, "donor_count": 6, "cancer_samples": 6, "cancer_donors": 6, "noncancer_samples": 0, "noncancer_donors": 0, "contains_both_classes": false }, { "batch_id": "13", "sample_count": 3, "donor_count": 3, "cancer_samples": 3, "cancer_donors": 3, "noncancer_samples": 0, "noncancer_donors": 0, "contains_both_classes": false }, { "batch_id": "14", "sample_count": 4, "donor_count": 4, "cancer_samples": 4, "cancer_donors": 4, "noncancer_samples": 0, "noncancer_donors": 0, "contains_both_classes": false }, { "batch_id": "15", "sample_count": 1, "donor_count": 1, "cancer_samples": 1, "cancer_donors": 1, "noncancer_samples": 0, "noncancer_donors": 0, "contains_both_classes": false }, { "batch_id": "16", "sample_count": 1, "donor_count": 1, "cancer_samples": 1, "cancer_donors": 1, "noncancer_samples": 0, "noncancer_donors": 0, "contains_both_classes": false }, { "batch_id": "17", "sample_count": 1, "donor_count": 1, "cancer_samples": 0, "cancer_donors": 0, "noncancer_samples": 1, "noncancer_donors": 1, "contains_both_classes": false }, { "batch_id": "18", "sample_count": 6, "donor_count": 6, "cancer_samples": 6, "cancer_donors": 6, "noncancer_samples": 0, "noncancer_donors": 0, "contains_both_classes": false }, { "batch_id": "19", "sample_count": 4, "donor_count": 4, "cancer_samples": 4, "cancer_donors": 4, "noncancer_samples": 0, "noncancer_donors": 0, "contains_both_classes": false }, { "batch_id": "20", "sample_count": 4, "donor_count": 4, "cancer_samples": 4, "cancer_donors": 4, "noncancer_samples": 0, "noncancer_donors": 0, "contains_both_classes": false }, { "batch_id": "21", "sample_count": 7, "donor_count": 7, "cancer_samples": 0, "cancer_donors": 0, "noncancer_samples": 7, "noncancer_donors": 7, "contains_both_classes": false }, { "batch_id": "22", "sample_count": 1, "donor_count": 1, "cancer_samples": 1, "cancer_donors": 1, "noncancer_samples": 0, "noncancer_donors": 0, "contains_both_classes": false } ], "mixed_class_batches_only": { "status": "technically_evaluable_but_severely_underpowered", "performance_scope": "Post-hoc exploratory analysis of advanced prostate and metastatic breast cancer; donor-grouped internal resampling; severely batch-confounded; not MCED, early-detection, screening, external-validation, or clinical performance.", "batches": [ "8", "10" ], "sample_records": 7, "donors": 7, "cancer_donors": 3, "noncancer_donors": 4, "posthoc_exploratory_roc_auc": 1.0, "fold_audit": [ { "fold": 0, "validation_donor": "01115_372", "validation_samples": 1, "training_donors": 6, "training_samples": 6, "training_class_counts": { "0": 4, "1": 2 }, "overlap_donor_count": 0 }, { "fold": 1, "validation_donor": "01115_468", "validation_samples": 1, "training_donors": 6, "training_samples": 6, "training_class_counts": { "0": 4, "1": 2 }, "overlap_donor_count": 0 }, { "fold": 2, "validation_donor": "12431_24", "validation_samples": 1, "training_donors": 6, "training_samples": 6, "training_class_counts": { "0": 4, "1": 2 }, "overlap_donor_count": 0 }, { "fold": 3, "validation_donor": "HD12", "validation_samples": 1, "training_donors": 6, "training_samples": 6, "training_class_counts": { "0": 3, "1": 3 }, "overlap_donor_count": 0 }, { "fold": 4, "validation_donor": "HD28", "validation_samples": 1, "training_donors": 6, "training_samples": 6, "training_class_counts": { "0": 3, "1": 3 }, "overlap_donor_count": 0 }, { "fold": 5, "validation_donor": "HD29", "validation_samples": 1, "training_donors": 6, "training_samples": 6, "training_class_counts": { "0": 3, "1": 3 }, "overlap_donor_count": 0 }, { "fold": 6, "validation_donor": "HD30", "validation_samples": 1, "training_donors": 6, "training_samples": 6, "training_class_counts": { "0": 3, "1": 3 }, "overlap_donor_count": 0 } ], "donor_predictions": [ { "patient_id": "01115_372", "label": 1, "score": 0.2047174591813692 }, { "patient_id": "01115_468", "label": 1, "score": -0.08058204257520085 }, { "patient_id": "12431_24", "label": 1, "score": 2.1550640118606452 }, { "patient_id": "HD12", "label": 0, "score": -0.27839854765165195 }, { "patient_id": "HD28", "label": 0, "score": -0.28642540036686615 }, { "patient_id": "HD29", "label": 0, "score": -0.14656862429928036 }, { "patient_id": "HD30", "label": 0, "score": -0.5699776850361877 } ] }, "cross_mixed_batch_transfer": [ { "held_out_batch": "8", "training_batches": [ "10" ], "status": "technically_evaluable_but_extremely_small", "performance_scope": "Post-hoc exploratory analysis of advanced prostate and metastatic breast cancer; donor-grouped internal resampling; severely batch-confounded; not MCED, early-detection, screening, external-validation, or clinical performance.", "training_donors": 4, "training_cancer_donors": 1, "training_noncancer_donors": 3, "validation_donors": 3, "validation_cancer_donors": 2, "validation_noncancer_donors": 1, "overlap_donor_count": 0, "posthoc_exploratory_roc_auc": 1.0, "predictions": [ { "patient_id": "01115_468", "label": 1, "score": 0.14578867005346452 }, { "patient_id": "12431_24", "label": 1, "score": 1.846718569949996 }, { "patient_id": "HD12", "label": 0, "score": -0.2580737394685266 } ] }, { "held_out_batch": "10", "training_batches": [ "8" ], "status": "technically_evaluable_but_extremely_small", "performance_scope": "Post-hoc exploratory analysis of advanced prostate and metastatic breast cancer; donor-grouped internal resampling; severely batch-confounded; not MCED, early-detection, screening, external-validation, or clinical performance.", "training_donors": 3, "training_cancer_donors": 2, "training_noncancer_donors": 1, "validation_donors": 4, "validation_cancer_donors": 1, "validation_noncancer_donors": 3, "overlap_donor_count": 0, "posthoc_exploratory_roc_auc": 1.0, "predictions": [ { "patient_id": "01115_372", "label": 1, "score": -0.015582269065123985 }, { "patient_id": "HD28", "label": 0, "score": -0.23643559496888764 }, { "patient_id": "HD29", "label": 0, "score": -0.1754313402920261 }, { "patient_id": "HD30", "label": 0, "score": -0.34883997430834346 } ] } ] }, "limitations": [ "This is advanced castration-resistant prostate and metastatic breast cancer versus healthy donors, not MCED or early-stage disease.", "All estimates are internal to one released cohort and are not independent validation.", "Donor aggregation uses multiple longitudinal samples when available and therefore does not estimate single-draw performance.", "Only 12 noncancer donors are available, with no benign or inflammatory disease controls.", "Batch is strongly outcome-associated; most batches contain only one class.", "Mixed-batch and cross-batch sensitivity analyses contain only a handful of donors and are extremely unstable.", "The donor LODO AUROC pools raw decision margins from 42 separately fitted fold models; those margins are not calibrated and their scales are not formally guaranteed to be commensurate.", "The coordinates are author processed; alignment and duplicate removal were not reproduced, and duplicate state remains unknown.", "The 221,792,015 passing observations are coordinate records, not guaranteed unique fragments or molecules because duplicate status is unknown.", "Coverage bins have neutral GC/mappability placeholders and are not a production CNA correction.", "All samples cover 567/589 bins; 22 assembly-gap/centromeric bins are zero in every sample and remain in the robust MAD calculation.", "Very long spans and noncanonical contigs occur upstream; the locked 50-1000 bp and chr1-22 filters define this analysis.", "No clinical sensitivity, specificity, PPV, screening threshold, tissue-of-origin, or generalization claim is supported." ] }