{"id":"W4396213829","doi":"10.1101/2024.04.26.591283","title":"A new method for detecting mixed <i>Mycobacterium tuberculosis</i> infection and reconstructing constituent strains provides insights into transmission","year":2024,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Tuberculosis Research and Epidemiology","field":"Medicine","cited_by":3,"is_retracted":false,"has_abstract":true,"ca_institutions":"Simon Fraser University","funders":"","keywords":"Mycobacterium tuberculosis; Transmission (telecommunications); Mycobacterium tuberculosis complex; Tuberculosis; Microbiology; Virology; Biology; Computational biology; Computer science; Medicine; Pathology; Telecommunications","routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001418047,0.001081693,0.0007456391,0.001777811,0.0006274116,0.001490328,0.001135552,0.00115849,0.001722178],"category_scores_gemma":[0.003946951,0.0007944252,0.001178385,0.0007697886,0.0006603575,0.00095489,0.001169053,0.001325535,0.001181621],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0005351752,"about_ca_system_score_gemma":0.0007275707,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001880485,"about_ca_topic_score_gemma":0.002857239,"domain_scores_codex":[0.9989722,0.000147983,0.00007724347,0.0004620239,0.000259162,0.00008140086],"domain_scores_gemma":[0.9982697,0.0006228508,0.0003631944,0.0003203095,0.0003070178,0.000116905],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.001381637,0.0002115869,0.07850223,0.0005575141,0.0003978946,0.0004317457,0.0005103085,0.02529163,0.7050501,0.003070037,0.004154019,0.1804412],"study_design_scores_gemma":[0.00005376848,0.0002965315,0.02328449,0.00006798269,0.0002099163,0.001204334,0.0001818272,0.6085185,0.3512741,0.003902265,0.0108638,0.0001424798],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"methods","genre_gemma":"empirical","genre_scores_codex":[0.218218,0.0005395771,0.7673712,0.0002853319,0.0001046899,0.000096307,0.001996534,0.01007307,0.00131529],"genre_scores_gemma":[0.3648848,0.0001965204,0.6297605,0.000249326,0.00003940428,0.0001057983,0.002323145,0.001193813,0.001246694],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.001880485,"threshold_uncertainty_score":0.007499397,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02235303920459213,"score_gpt":0.2993040303333009,"score_spread":0.2769509911287088,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). Scores rank; they never assert a category."}}