{"id":"W2951162601","doi":"10.1093/bioinformatics/btz476","title":"Mycorrhiza: genotype assignment using phylogenetic networks","year":2019,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Mycorrhizal Fungi and Plant Interactions","field":"Agricultural and Biological Sciences","cited_by":5,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université Laval; University of British Columbia; McGill University","funders":"","keywords":"Phylogenetic tree; Genotype; Biology; Phylogenetics; Genetics; Computational biology; Computer science; Evolutionary biology; Gene","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":"codex-gemma-dda1882f352a","candidate_categories":["insufficient_payload"],"consensus_categories":["insufficient_payload"],"category_scores_codex":[0.00008791663,0.0001125214,0.0001202618,0.00001079133,0.0001024342,0.00006234193,0.0001513282,0.00008167109,0.005723502],"category_scores_gemma":[0.00001801085,0.00004389095,0.00006419763,0.0001666737,0.000002885595,0.0001189529,0.00005100958,0.00009751046,0.002401482],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002755108,"about_ca_system_score_gemma":0.000006867186,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001140304,"about_ca_topic_score_gemma":0.00001324961,"domain_scores_codex":[0.9992812,0.00001753,0.000230854,0.00009130692,0.0001401047,0.0002390635],"domain_scores_gemma":[0.9994217,0.0003100162,0.0000940952,0.00006499724,0.00003258135,0.00007659858],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.0001744974,0.0002794074,0.5404277,0.0001162532,0.0001503364,0.00001082166,0.0005274419,0.03708761,0.2335877,0.004037526,0.02724914,0.1563516],"study_design_scores_gemma":[0.00009889196,0.0003628059,0.01260826,0.00009894496,0.00004237362,0.00009070415,0.0005057701,0.8144473,0.001029923,0.0001875489,0.1699837,0.0005437689],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9826252,0.0002908522,0.001251652,0.00005595611,0.0009035611,0.0003290524,0.0002329784,0.00006743237,0.01424325],"genre_scores_gemma":[0.9958947,0.0002704303,0.002022007,0.000467567,0.0002551469,0.000003747564,0.0005582618,0.000001189122,0.0005269054],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.7773597,"threshold_uncertainty_score":0.9983752,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01457205002702791,"score_gpt":0.2042116420026782,"score_spread":0.1896395919756503,"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."}}