{"id":"W1967779392","doi":"10.1093/nar/gkv401","title":"IslandViewer 3: more flexible, interactive genomic island discovery, visualization and analysis: Figure 1.","year":2015,"lang":"en","type":"article","venue":"Nucleic Acids Research","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":274,"is_retracted":false,"has_abstract":true,"ca_institutions":"Dalhousie University; McMaster University; Simon Fraser University","funders":"Cisco Systems Canada; SFU Community Trust Endowment Fund; Simon Fraser University; Genome British Columbia; McMaster University; Cystic Fibrosis Canada; Canadian Institutes of Health Research; Genome Canada; Cisco Systems","keywords":"Genome; Biology; Visualization; Computational biology; Gene; Bacterial genome size; Genetics; ENCODE; Virulence; Data mining; Computer science","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0004671502,0.0001451218,0.0002019621,0.000183026,0.0001383614,0.0001180747,0.0001941618,0.0001183984,0.00004047408],"category_scores_gemma":[0.0001521338,0.0001244664,0.00007321461,0.000359446,0.0001866587,0.000003617753,0.0003846608,0.0001404743,0.00001939052],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003435351,"about_ca_system_score_gemma":0.00006032053,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00007008299,"about_ca_topic_score_gemma":0.0001365188,"domain_scores_codex":[0.9986607,0.0001487474,0.0001716753,0.0004291753,0.0002744215,0.0003152148],"domain_scores_gemma":[0.9991596,0.00002232069,0.00004555467,0.0003297708,0.0003143308,0.0001284291],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","study_design_scores_codex":[0.001217891,0.0004455172,0.397593,0.0001139725,0.004385751,0.0000247049,0.01232705,0.0006900304,0.4821951,0.001413686,0.09203383,0.007559463],"study_design_scores_gemma":[0.0068404,0.003280191,0.3716026,0.00007347874,0.0008054959,0.00004865452,0.01487743,0.01459493,0.04591359,0.002692386,0.5374867,0.001784136],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9911013,0.003495434,0.0008071772,0.0002513932,0.00007436642,0.0002088314,0.00009195216,0.000003530325,0.003965969],"genre_scores_gemma":[0.9950445,0.0009981681,0.0001164161,0.0001072731,0.0002131884,0.00002708569,0.0001295568,0.00002350605,0.003340326],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.4454529,"threshold_uncertainty_score":0.5075591,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0378107861070302,"score_gpt":0.3574440765646696,"score_spread":0.3196332904576394,"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."}}