{"id":"W2953157660","doi":"10.1099/mgen.0.000146","title":"MentaLiST – A fast MLST caller for large MLST schemes","year":2018,"lang":"en","type":"article","venue":"Microbial Genomics","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":63,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia; BC Centre for Disease Control; Simon Fraser University","funders":"","keywords":"Multilocus sequence typing; Housekeeping gene; Genotyping; Typing; Computer science; Biology; Computational biology; Genetics; Gene; 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":[0.003525117,0.00257073,0.001902641,0.001732929,0.001459678,0.002879089,0.005640149,0.002926896,0.03111783],"category_scores_gemma":[0.01715227,0.002252313,0.00273772,0.001024894,0.0009339533,0.002807686,0.004045585,0.004342291,0.02255658],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001368825,"about_ca_system_score_gemma":0.002274786,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002306884,"about_ca_topic_score_gemma":0.004182186,"domain_scores_codex":[0.9970772,0.0005641862,0.0002945717,0.0007973342,0.0009699489,0.0002968778],"domain_scores_gemma":[0.9956943,0.002370939,0.0003016003,0.0008060282,0.0006058067,0.0002213569],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.003549879,0.0005417925,0.009367596,0.002604574,0.0009821871,0.001300422,0.001637588,0.04952228,0.1136692,0.02699441,0.2710162,0.5188138],"study_design_scores_gemma":[0.0007576852,0.000240296,0.002720283,0.0002344121,0.000149607,0.0008050218,0.0001695046,0.7020471,0.08879662,0.02931517,0.1741937,0.0005705912],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"software","genre_scores_codex":[0.007121682,0.0002430443,0.665732,0.000195579,0.0002619348,0.0002670279,0.004000195,0.3195871,0.002591478],"genre_scores_gemma":[0.05757911,0.000264484,0.8516802,0.000585335,0.0001138494,0.001161618,0.01520376,0.06552737,0.007884302],"genre_candidate":"software","genre_consensus":null,"teacher_disagreement_score":0.03111783,"threshold_uncertainty_score":0.1040995,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01093940211471517,"score_gpt":0.2450760243677387,"score_spread":0.2341366222530235,"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."}}