{"id":"W4410463661","doi":"10.1093/gbe/evaf092","title":"ParallelEvolCCM: Quantifying Coevolutionary Patterns Among Genomic Features","year":2025,"lang":"en","type":"article","venue":"Genome Biology and Evolution","topic":"Bioinformatics and Genomic Networks","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Dalhousie University","funders":"Natural Sciences and Engineering Research Council of Canada; Research Nova Scotia; Genome Atlantic; Genome Canada; Alliance de recherche numérique du Canada; Dalhousie University","keywords":"Biology; Evolutionary biology; Computational biology","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":[0.004051056,0.002388726,0.002282863,0.005003661,0.001296323,0.003280623,0.002673324,0.001782402,0.007436745],"category_scores_gemma":[0.01757976,0.001065514,0.003429948,0.005218227,0.001045791,0.002593936,0.002759088,0.002247346,0.003445202],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001355122,"about_ca_system_score_gemma":0.001764193,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.005847643,"about_ca_topic_score_gemma":0.008150368,"domain_scores_codex":[0.9977559,0.0005249172,0.0001025954,0.001092146,0.0003598849,0.0001644732],"domain_scores_gemma":[0.9958745,0.00220375,0.0003892793,0.001042529,0.0003405271,0.0001495041],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.002354137,0.0005323423,0.1667003,0.005450564,0.00569711,0.0007689734,0.001355475,0.2182841,0.03514987,0.03327801,0.2608307,0.2695984],"study_design_scores_gemma":[0.0004356111,0.0003319795,0.0480139,0.0002262598,0.0005863123,0.0009872479,0.0002867994,0.7635242,0.01721847,0.07107579,0.09700315,0.0003102972],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.2707451,0.004462169,0.3520304,0.001138815,0.0008043793,0.0005805308,0.2233499,0.1368423,0.01004639],"genre_scores_gemma":[0.3724953,0.0009839872,0.3975235,0.0006967282,0.000208119,0.00200604,0.2034519,0.01915798,0.003476456],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.007436745,"threshold_uncertainty_score":0.02487844,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.00802317850700139,"score_gpt":0.2457731667447272,"score_spread":0.2377499882377258,"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."}}