{"id":"W4205271892","doi":"10.1101/2022.01.15.476463","title":"Genome assembly, structural variants, and genetic differentiation between Lake Whitefish young species pairs ( <i>Coregonus</i> sp.) with long and short reads","year":2022,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":3,"is_retracted":false,"has_abstract":true,"ca_institutions":"Ministère des Ressources naturelles et des Forêts; Université Laval","funders":"Natural Sciences and Engineering Research Council of Canada; Government of Canada; Université Laval","keywords":"Coregonus clupeaformis; Biology; Genome; Sympatric speciation; Genetics; Genetic architecture; Evolutionary biology; Single-nucleotide polymorphism; Transposable element; Genotype; Quantitative trait locus; Gene; 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":[0.0003540463,0.0002781248,0.0003279371,0.001078291,0.0003964654,0.0004717589,0.0002178583,0.0002778309,0.000892236],"category_scores_gemma":[0.0008099994,0.0002469876,0.0005882339,0.001117957,0.0002307517,0.0002138148,0.0004985473,0.0003390835,0.0002293895],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004248929,"about_ca_system_score_gemma":0.0003942299,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00864296,"about_ca_topic_score_gemma":0.02127523,"domain_scores_codex":[0.9997167,0.00002453612,0.00002502556,0.0001489764,0.00005060802,0.00003413055],"domain_scores_gemma":[0.9996114,0.00009624312,0.00009975913,0.00005185999,0.00008809146,0.00005266275],"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":[0.0006023429,0.00003455946,0.113099,0.0003958596,0.0003265855,0.0002660178,0.001077052,0.001912344,0.862478,0.0003216143,0.000534965,0.0189519],"study_design_scores_gemma":[0.00003317504,0.0001873935,0.9493111,0.00005062484,0.0002827871,0.0003965346,0.0005108778,0.007242897,0.03381949,0.0002581954,0.007865945,0.00004103448],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9916133,0.0002144862,0.003766658,0.00002564733,0.000007560341,0.00002206014,0.00368899,0.0001175322,0.0005439204],"genre_scores_gemma":[0.9626469,0.0001279493,0.01791915,0.00006546637,0.000005749407,0.00006827457,0.01809268,0.0001407309,0.00093314],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.00864296,"threshold_uncertainty_score":0.01718533,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.009742309792415237,"score_gpt":0.1955474199922463,"score_spread":0.1858051101998311,"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."}}