{"id":"W2921528567","doi":"10.1093/biolinnean/blz096","title":"Success of alignment-free oligonucleotide (k-mer) analysis confirms relative importance of genomes not genes in speciation and phylogeny","year":2019,"lang":"en","type":"preprint","venue":"Biological Journal of the Linnean Society","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":2,"is_retracted":false,"has_abstract":true,"ca_institutions":"Queen's University","funders":"Queen's University","keywords":"Biology; Genome; Substring; Genetics; Phylogenetics; Phylogenetic tree; Evolutionary biology; Gene; DNA; Meiosis; Base pair; 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":[0.0007862666,0.0002810329,0.0003704969,0.00148432,0.0003842119,0.0008874697,0.0003367616,0.0006829304,0.003610729],"category_scores_gemma":[0.002948044,0.0001720009,0.0002564105,0.0009751563,0.0005734616,0.0009894464,0.0005383618,0.0005867234,0.001898747],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002774839,"about_ca_system_score_gemma":0.0002143792,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003399296,"about_ca_topic_score_gemma":0.000535125,"domain_scores_codex":[0.9992844,0.0001855538,0.000054776,0.0003028486,0.0001101765,0.00006217906],"domain_scores_gemma":[0.9984002,0.0005904669,0.0003129606,0.0002556962,0.0003151984,0.0001255124],"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":[0.0009795051,0.00006697814,0.02480205,0.0003233825,0.00009584428,0.0002692961,0.0004131779,0.001113766,0.9249678,0.005625305,0.000381757,0.04096117],"study_design_scores_gemma":[0.00004494611,0.0006927559,0.1451392,0.000114344,0.0002476421,0.002587258,0.001116166,0.03629825,0.769348,0.02135908,0.02294787,0.0001045509],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8825408,0.001781409,0.1050557,0.0001768982,0.0001465645,0.000035144,0.001297453,0.0006964716,0.008269571],"genre_scores_gemma":[0.9328361,0.0003342564,0.06353764,0.00009573795,0.00002517931,0.00002170066,0.0008639969,0.0001564977,0.00212898],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.003610729,"threshold_uncertainty_score":0.01207912,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02295080690446477,"score_gpt":0.2545248913997332,"score_spread":0.2315740844952685,"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."}}