{"id":"W2157524147","doi":"10.1371/journal.pone.0078680","title":"Vitis Phylogenomics: Hybridization Intensities from a SNP Array Outperform Genotype Calls","year":2013,"lang":"en","type":"article","venue":"PLoS ONE","topic":"Horticultural and Viticultural Research","field":"Agricultural and Biological Sciences","cited_by":56,"is_retracted":false,"has_abstract":true,"ca_institutions":"Dalhousie University","funders":"Canada Research Chairs; Saint Louis University; U.S. Department of Agriculture","keywords":"Biology; Single-nucleotide polymorphism; Evolutionary biology; Genetics; SNP; Genotype; Minor allele frequency; Phylogenetics; Gene","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":[0.00202426,0.0004215936,0.0005729197,0.001240444,0.0004921115,0.001301091,0.0004205129,0.0006680714,0.001594473],"category_scores_gemma":[0.003614662,0.0004252678,0.0004746447,0.001561733,0.0006117189,0.0008075925,0.0009791884,0.001252946,0.0005309324],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004658632,"about_ca_system_score_gemma":0.0002797377,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002104796,"about_ca_topic_score_gemma":0.003855131,"domain_scores_codex":[0.9985788,0.000450076,0.00005379057,0.000550149,0.0002848339,0.00008227411],"domain_scores_gemma":[0.9983102,0.000862368,0.0003281978,0.0002697582,0.0001631076,0.00006624941],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0004786113,0.00008248784,0.3043316,0.0003284905,0.0004239721,0.0001296898,0.001813682,0.009177084,0.5588417,0.004044861,0.001489464,0.1188584],"study_design_scores_gemma":[0.00003915857,0.0002330734,0.8506092,0.00009050818,0.000379617,0.0006492088,0.001192623,0.05450736,0.06271785,0.01160035,0.0178833,0.00009768487],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8476862,0.001220256,0.1385695,0.0005653024,0.00006294315,0.00004364875,0.002240584,0.001219691,0.008391793],"genre_scores_gemma":[0.8856196,0.000505658,0.1091034,0.0004536092,0.00004609178,0.00007581818,0.00230229,0.0003210152,0.001572497],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002104796,"threshold_uncertainty_score":0.01070547,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.07190511610081914,"score_gpt":0.2205274616526223,"score_spread":0.1486223455518031,"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."}}