{"id":"W3172025065","doi":"10.1101/2021.06.02.446701","title":"Genomic evidence that blind cavefishes are not wrecks of ancient life","year":2021,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Subterranean biodiversity and taxonomy","field":"Earth and Planetary Sciences","cited_by":3,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université Laval","funders":"","keywords":"Cave; Biology; Evolutionary biology; Pseudogene; Blindness; Cichlid; Pleistocene; Zoology; Genome; Paleontology; Ecology; Fish <Actinopterygii>; Gene; Genetics; Fishery","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":["metaepi_narrow","insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.000685327,0.0004867723,0.000724828,0.0002571572,0.0002449837,0.0003095889,0.0009475744,0.000479416,0.00163691],"category_scores_gemma":[0.0003195325,0.000513196,0.0002690385,0.0003837617,0.0002537707,0.0003424085,0.0002354662,0.0006620183,0.0001829014],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00004889091,"about_ca_system_score_gemma":0.001112545,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00161273,"about_ca_topic_score_gemma":0.0003285978,"domain_scores_codex":[0.9971066,0.0001979942,0.0004834072,0.001058932,0.0005881347,0.0005649163],"domain_scores_gemma":[0.9970049,0.0002268922,0.0008834567,0.001100597,0.0003328845,0.0004513174],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0001315926,0.00005809373,0.9875519,0.000479683,0.0001635962,0.0001340711,0.00004402781,0.0006804077,0.01041004,0.000003752933,0.0003331631,0.000009704556],"study_design_scores_gemma":[0.0003336617,0.00004447994,0.9597682,0.0006205228,0.0001227968,3.518052e-8,0.00004336966,0.000393413,0.03449759,1.135353e-7,0.003588711,0.0005871502],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9901943,0.006396561,0.0001764113,0.000167987,0.001652722,0.0004767964,0.0007797573,0.0001068524,0.00004866055],"genre_scores_gemma":[0.9957863,0.0008459198,0.002369589,0.0006981804,0.0002724216,0.000005618173,0.000002044552,0.00001529661,0.000004602303],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.02778371,"threshold_uncertainty_score":0.999732,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.08591833067827746,"score_gpt":0.2054591686707774,"score_spread":0.1195408379924999,"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."}}