{"id":"W4288038235","doi":"10.1093/sysbio/syac051","title":"Exon-based Phylogenomics and the Relationships of African Cichlid Fishes: Tackling the Challenges of Reconstructing Phylogenies with Repeated Rapid Radiations","year":2022,"lang":"en","type":"article","venue":"Systematic Biology","topic":"Fish biology, ecology, and behavior","field":"Environmental Science","cited_by":37,"is_retracted":false,"has_abstract":true,"ca_institutions":"Canadian Museum of Nature; Royal Ontario Museum; University of Toronto","funders":"Natural Sciences and Engineering Research Council of Canada; Grantová Agentura České Republiky; Universität Basel; University of Michigan; American Museum of Natural History; Nature; Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung; National Science Foundation","keywords":"Biology; Cichlid; Phylogenetic tree; Phylogenomics; Evolutionary biology; Coalescent theory; Phylogenetics; Supertree; Supermatrix; Clade; Gene; Genetics; Fish <Actinopterygii>","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":[0.0009511068,0.0002767884,0.0002931089,0.00159698,0.0006763929,0.0008327394,0.0005104778,0.0005637285,0.0010627],"category_scores_gemma":[0.002295532,0.0002167609,0.0003056766,0.001422295,0.0005297813,0.0008102719,0.0006929414,0.0005991015,0.0003409089],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003901584,"about_ca_system_score_gemma":0.0004029672,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001791266,"about_ca_topic_score_gemma":0.003776612,"domain_scores_codex":[0.9996949,0.00008650465,0.00002139887,0.0001351629,0.00003530629,0.00002674318],"domain_scores_gemma":[0.9992091,0.0003770222,0.0002052721,0.00009471297,0.00007769693,0.00003634722],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.000462389,0.0001158865,0.3138604,0.001012406,0.000589079,0.001180173,0.005099318,0.02905576,0.42623,0.0129995,0.001375846,0.2080192],"study_design_scores_gemma":[0.00003212337,0.0001427103,0.7118134,0.0003126699,0.0005123805,0.001219287,0.002264174,0.1961595,0.03753992,0.0215065,0.02839298,0.0001043687],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9612654,0.001386184,0.03437481,0.0002275633,0.00001157228,0.00001698565,0.001075155,0.0001763703,0.001465854],"genre_scores_gemma":[0.9558473,0.0006752786,0.04070484,0.0001418256,0.0000164519,0.00003223421,0.001981837,0.00008294674,0.0005173212],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001791266,"threshold_uncertainty_score":0.005030036,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0311947281632158,"score_gpt":0.2191032125537023,"score_spread":0.1879084843904865,"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."}}