{"id":"W4413232635","doi":"10.1093/sysbio/syag040","title":"Modeling Site-and-Branch-Heterogeneity with GFmix","year":2025,"lang":"en","type":"preprint","venue":"Systematic Biology","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":6,"is_retracted":false,"has_abstract":true,"ca_institutions":"Dalhousie University","funders":"Natural Sciences and Engineering Research Council of Canada; Université Paris-Saclay; Dalhousie University; Simons Foundation","keywords":"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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.005317451,0.001407704,0.001303602,0.001680715,0.0009920435,0.001820498,0.003591769,0.003026699,0.002779396],"category_scores_gemma":[0.01442582,0.00106193,0.002847087,0.001807041,0.002122129,0.003045445,0.002477194,0.003082594,0.0007604735],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001886028,"about_ca_system_score_gemma":0.001463148,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.01103189,"about_ca_topic_score_gemma":0.009671847,"domain_scores_codex":[0.9986721,0.0004787759,0.00007016336,0.0004563084,0.0001666546,0.0001559842],"domain_scores_gemma":[0.9941351,0.004126796,0.0006860185,0.0005840003,0.0002785728,0.0001895051],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"simulation_or_modeling","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.0002231693,0.0000662396,0.01040053,0.0001036585,0.0001696623,0.000170144,0.0003160705,0.9239041,0.005118212,0.03518423,0.0008796641,0.02346436],"study_design_scores_gemma":[0.00001991408,0.00002068836,0.0005905849,0.000008278962,0.00001887876,0.00003556924,0.00001939573,0.9764241,0.0006820098,0.02136858,0.0007916436,0.00002032448],"study_design_candidate":"simulation_or_modeling","study_design_consensus":"simulation_or_modeling","genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.1609545,0.0003082067,0.8345111,0.0003531408,0.00004955577,0.0001650538,0.0008950878,0.00106796,0.001695422],"genre_scores_gemma":[0.6946861,0.0003663492,0.2965709,0.0004741482,0.0001056884,0.0006865115,0.002528703,0.0006666559,0.003914905],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.01103189,"threshold_uncertainty_score":0.02812171,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01835944855441289,"score_gpt":0.2608480138736451,"score_spread":0.2424885653192322,"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."}}