{"id":"W2767405109","doi":"10.7717/peerj.4218","title":"Evidence-based design and evaluation of a whole genome sequencing clinical report for the reference microbiology laboratory","year":2018,"lang":"en","type":"article","venue":"PeerJ","topic":"Tuberculosis Research and Epidemiology","field":"Medicine","cited_by":57,"is_retracted":false,"has_abstract":true,"ca_institutions":"BC Centre for Disease Control; University of British Columbia","funders":"Canada Research Chairs; Genome British Columbia","keywords":"Workflow; Evidence-based design; Computer science; Data science; Test (biology); Genomics; Domain (mathematical analysis); Visualization; Medicine; Medical physics; Data mining; Genome; Pathology","routes":{"ca_aff":true,"ca_fund":true,"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":["metaresearch"],"consensus_categories":[],"category_scores_codex":[0.544058,0.00259881,0.00254589,0.005804733,0.003308343,0.01171705,0.01061063,0.007191922,0.00562821],"category_scores_gemma":[0.6961184,0.001966499,0.006513933,0.003367672,0.003627141,0.006290456,0.008325095,0.005044019,0.001414052],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.02058646,"about_ca_system_score_gemma":0.06130022,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003886784,"about_ca_topic_score_gemma":0.005287272,"domain_scores_codex":[0.3252154,0.5843149,0.04972282,0.006900095,0.02973147,0.004115122],"domain_scores_gemma":[0.2599386,0.5070654,0.05709977,0.0407962,0.123321,0.01177893],"domain_codex":"methods","domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"observational","study_design_scores_codex":[0.02892826,0.01757417,0.02222791,0.06237217,0.004709541,0.001304361,0.01919878,0.01561988,0.001640779,0.01029865,0.0156126,0.8005129],"study_design_scores_gemma":[0.1252048,0.3030561,0.0388671,0.199414,0.01771031,0.001301694,0.03341428,0.04946655,0.01953339,0.02532065,0.1847191,0.001992003],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"protocol","genre_gemma":"empirical","genre_scores_codex":[0.2308765,0.01443449,0.2200729,0.02429489,0.005865384,0.4824485,0.002536075,0.001984596,0.01748661],"genre_scores_gemma":[0.2626913,0.003360195,0.5832073,0.002743732,0.0003543246,0.1460612,0.0007066569,0.0001572193,0.000718007],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.544058,"threshold_uncertainty_score":0.5622576,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.4541183850274857,"score_gpt":0.4925940901119986,"score_spread":0.03847570508451292,"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."}}