{"id":"W3089847646","doi":"10.1016/j.cll.2020.08.003","title":"Clinical Pathogen Genomics","year":2020,"lang":"en","type":"review","venue":"Clinics in Laboratory Medicine","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":19,"is_retracted":false,"has_abstract":false,"ca_institutions":"Memorial University of Newfoundland","funders":"Department of Pathology and Laboratory Medicine, University of North Carolina School of Medicine; Medical Center, University of Rochester","keywords":"Metagenomics; Genomics; Whole genome sequencing; DNA sequencing; Computational biology; Infectious disease (medical specialty); Biology; Genome; Medicine; Disease; Genetics; Gene; Pathology","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":[0.001582415,0.001294858,0.001322748,0.002242375,0.0003307384,0.001918445,0.001120668,0.002278125,0.01162128],"category_scores_gemma":[0.002595128,0.0003574857,0.0004857233,0.001549065,0.001009095,0.00175359,0.001805883,0.003636683,0.006854381],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001236648,"about_ca_system_score_gemma":0.002218954,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001349304,"about_ca_topic_score_gemma":0.002597174,"domain_scores_codex":[0.9995097,0.0001365821,0.00004022363,0.00009162311,0.0001566664,0.00006511417],"domain_scores_gemma":[0.9991118,0.000433612,0.00006652802,0.00004487358,0.0002127772,0.0001303811],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"not_applicable","study_design_scores_codex":[0.00006576591,0.0000506525,0.0001171116,0.003532011,0.00003130396,0.0001720866,0.00002919116,0.0001856959,0.0007282692,0.008290362,0.1858005,0.800997],"study_design_scores_gemma":[0.00001975129,0.0000301316,0.000225892,0.00212485,0.00002865594,0.0007096665,0.0000207976,0.00006328796,0.0001322613,0.002995008,0.9936411,0.000008668561],"study_design_candidate":"not_applicable","study_design_consensus":null,"genre_codex":"review","genre_gemma":"review","genre_scores_codex":[0.00006519708,0.9876686,0.001034497,0.002452872,0.003089899,0.00001842539,0.00005087151,0.00005309972,0.005566656],"genre_scores_gemma":[0.0009270369,0.9843426,0.001126616,0.003505683,0.003602431,0.0000289625,0.000165932,0.00001324577,0.006287559],"genre_candidate":"review","genre_consensus":"review","teacher_disagreement_score":0.01162128,"threshold_uncertainty_score":0.03887713,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.06960159214589208,"score_gpt":0.4049854087978636,"score_spread":0.3353838166519715,"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."}}