{"id":"W2883838322","doi":"10.1099/mgen.0.000206","title":"MOB-suite: software tools for clustering, reconstruction and typing of plasmids from draft assemblies","year":2018,"lang":"en","type":"article","venue":"Microbial Genomics","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":978,"is_retracted":false,"has_abstract":true,"ca_institutions":"Public Health Agency of Canada","funders":"Government of Canada; Public Health Agency; Public Health Agency of Canada","keywords":"Plasmid; Suite; Replicon; Biology; Typing; Python (programming language); Genetics; Computational biology; Contig; Computer science; Genome; DNA; Gene; Operating system","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":[],"consensus_categories":[],"category_scores_codex":[0.004405399,0.00497343,0.002886399,0.004607951,0.001545079,0.00349472,0.004395468,0.001543888,0.03045759],"category_scores_gemma":[0.009622858,0.003456737,0.003745659,0.002105363,0.00085464,0.002870331,0.00444888,0.004322623,0.03351226],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001076429,"about_ca_system_score_gemma":0.00283012,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003849548,"about_ca_topic_score_gemma":0.004490134,"domain_scores_codex":[0.9977273,0.0005263345,0.0003410927,0.0005845824,0.000607848,0.0002127943],"domain_scores_gemma":[0.9974666,0.001138809,0.0004051205,0.0004008607,0.0004054088,0.0001833142],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"not_applicable","study_design_scores_codex":[0.002271125,0.00045882,0.01197634,0.01016706,0.002112957,0.001469433,0.002543271,0.02046889,0.05649718,0.01144474,0.6950427,0.1855475],"study_design_scores_gemma":[0.001179764,0.0005129793,0.01575477,0.001764821,0.0006181289,0.002049714,0.0007761625,0.1900725,0.0800924,0.03315946,0.6731226,0.0008965514],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"software","genre_gemma":"software","genre_scores_codex":[0.01220372,0.001217693,0.2685089,0.0003597249,0.0003701521,0.0006244247,0.1012501,0.6112962,0.004169093],"genre_scores_gemma":[0.03115257,0.00139682,0.475763,0.0007008962,0.0001263951,0.00272635,0.3244317,0.157658,0.006044276],"genre_candidate":"software","genre_consensus":"software","teacher_disagreement_score":0.03045759,"threshold_uncertainty_score":0.1018908,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0166303620466287,"score_gpt":0.2339690802582698,"score_spread":0.2173387182116411,"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."}}