{"id":"W2947533503","doi":"10.5203/pmuser.201841637","title":"Developing a Genotyping Scheme for Mycobacterium abscessus Complex Using Whole Genome Sequencing Data","year":2018,"lang":"en","type":"article","venue":"","topic":"Mycobacterium research and diagnosis","field":"Medicine","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Manitoba","funders":"","keywords":"rpoB; Mycobacterium abscessus; Multilocus sequence typing; Biology; Genotyping; Whole genome sequencing; Genome; Typing; Genetics; Computational biology; Gene; Mycobacterium; Genotype","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":[0.00492858,0.0008302907,0.001039179,0.003170155,0.0007008511,0.001924456,0.001125818,0.0008901746,0.002660676],"category_scores_gemma":[0.008499521,0.0007532146,0.0014486,0.001918034,0.0002952052,0.001305637,0.001758525,0.001205147,0.003800912],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000718332,"about_ca_system_score_gemma":0.002161094,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002997739,"about_ca_topic_score_gemma":0.003129788,"domain_scores_codex":[0.9964676,0.0006423197,0.0005164847,0.001251367,0.0008471055,0.0002751471],"domain_scores_gemma":[0.9951528,0.0009173675,0.0008066139,0.00108775,0.001620524,0.0004149104],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.001577561,0.0005720031,0.06723429,0.001673892,0.0003185685,0.001143189,0.001907992,0.02510032,0.3878163,0.005011281,0.02344864,0.4841959],"study_design_scores_gemma":[0.0003262843,0.00147032,0.07729504,0.0006103838,0.0004032921,0.00146538,0.001600949,0.3214714,0.4501171,0.01494018,0.1296849,0.000614767],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.104838,0.0004884365,0.8351504,0.0007314505,0.0002662554,0.002776403,0.02295444,0.0300779,0.002716672],"genre_scores_gemma":[0.05652775,0.0002107282,0.9221951,0.0001669927,0.00003106751,0.0007147174,0.0180125,0.0006600185,0.001481114],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.00492858,"threshold_uncertainty_score":0.02606511,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.3194186670768615,"score_gpt":0.4146954267095281,"score_spread":0.09527675963266669,"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."}}