{"id":"W2995585781","doi":"10.1186/s13059-019-1899-5","title":"TRITEX: chromosome-scale sequence assembly of Triticeae genomes with open-source tools","year":2019,"lang":"en","type":"article","venue":"Genome biology","topic":"Chromosomal and Genetic Variations","field":"Agricultural and Biological Sciences","cited_by":287,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Saskatchewan","funders":"Biotechnology and Biological Sciences Research Council; German Network for Bioinformatics Infrastructure; Genome Prairie; Bundesministerium für Ernährung und Landwirtschaft; Bundesministerium für Bildung und Forschung; Genome Canada","keywords":"Biology; Triticeae; Computational biology; Human genetics; Sequence assembly; Genome; Chromosome; Sequence (biology); Genetics; Evolutionary biology; Whole genome sequencing; Scale (ratio); Gene; Transcriptome","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":[0.001961871,0.001798765,0.001074685,0.00166004,0.001152928,0.0024727,0.002457058,0.001019671,0.0128955],"category_scores_gemma":[0.005297543,0.001192294,0.00177095,0.001840606,0.0004770874,0.001731196,0.002629142,0.002287386,0.008453269],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0008933555,"about_ca_system_score_gemma":0.001919167,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003651381,"about_ca_topic_score_gemma":0.008155582,"domain_scores_codex":[0.9991289,0.00009956635,0.0001076987,0.0003551009,0.0002212353,0.00008758096],"domain_scores_gemma":[0.998895,0.0003266615,0.0001551171,0.0002626342,0.0002333679,0.0001272101],"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":[0.003429394,0.0003538387,0.008621175,0.004942324,0.001510746,0.002628928,0.003159645,0.01565938,0.4467247,0.0208157,0.3003334,0.1918208],"study_design_scores_gemma":[0.001211699,0.0006798417,0.01388576,0.000916435,0.0004984377,0.003113081,0.001172537,0.1631964,0.2938761,0.02880715,0.4920878,0.0005549561],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.0696476,0.001425219,0.6247707,0.0005501845,0.000782789,0.001014044,0.107716,0.1793265,0.01476687],"genre_scores_gemma":[0.06616938,0.000931256,0.6725577,0.0003662577,0.00008619106,0.001646051,0.2239521,0.02860588,0.005685229],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.0128955,"threshold_uncertainty_score":0.04313976,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03408458621839151,"score_gpt":0.2481847410433481,"score_spread":0.2141001548249566,"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."}}