{"id":"W2394763400","doi":"10.1371/journal.pone.0147101","title":"The Salmonella In Silico Typing Resource (SISTR): An Open Web-Accessible Tool for Rapidly Typing and Subtyping Draft Salmonella Genome Assemblies","year":2016,"lang":"en","type":"article","venue":"PLoS ONE","topic":"Salmonella and Campylobacter epidemiology","field":"Agricultural and Biological Sciences","cited_by":605,"is_retracted":false,"has_abstract":true,"ca_institutions":"Public Health Agency of Canada","funders":"Public Health Agency; Public Health Agency of Canada; Government of Canada; Canadian Food Inspection Agency","keywords":"Subtyping; Multilocus sequence typing; In silico; Genome; Biology; Context (archaeology); Typing; Whole genome sequencing; Computational biology; Salmonella; Phylogenetic tree; Genetics; Database; Computer science; Gene","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":[0.003861817,0.003021768,0.002014355,0.006110262,0.001224012,0.002468925,0.002723186,0.001334245,0.01869479],"category_scores_gemma":[0.007878618,0.002003571,0.001817546,0.00449237,0.0004327245,0.002431439,0.004101604,0.001873635,0.03085246],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0006133123,"about_ca_system_score_gemma":0.002561328,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003326348,"about_ca_topic_score_gemma":0.005393482,"domain_scores_codex":[0.9981855,0.0003574502,0.0002653873,0.0004275794,0.0005870315,0.0001772023],"domain_scores_gemma":[0.9961129,0.001235659,0.0007171246,0.0007942469,0.0006004723,0.0005395534],"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":[0.003158761,0.0004520466,0.0156245,0.006417897,0.0007411383,0.001129979,0.0007558874,0.007427704,0.06685928,0.004688013,0.7054744,0.1872703],"study_design_scores_gemma":[0.001045575,0.0005793396,0.03316751,0.001511201,0.0004727729,0.001635106,0.000373522,0.0376705,0.05995561,0.01058151,0.8524168,0.0005906658],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"dataset","genre_gemma":"software","genre_scores_codex":[0.01808482,0.002315148,0.1444272,0.000534197,0.0003980433,0.0006331247,0.6297103,0.195656,0.008241253],"genre_scores_gemma":[0.01546263,0.0009045397,0.1422753,0.0002243646,0.00006304712,0.0005158932,0.8297797,0.008481741,0.002292708],"genre_candidate":"software","genre_consensus":null,"teacher_disagreement_score":0.01869479,"threshold_uncertainty_score":0.06254029,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.07572463021093476,"score_gpt":0.2695500370457397,"score_spread":0.193825406834805,"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."}}