{"id":"W3134848807","doi":"10.1093/plcell/koab077","title":"Long-read sequence assembly: a technical evaluation in barley","year":2021,"lang":"en","type":"article","venue":"The Plant Cell","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":426,"is_retracted":false,"has_abstract":true,"ca_institutions":"Global Institute for Water Security; University of Saskatchewan","funders":"European Regional Development Fund; German Network for Bioinformatics Infrastructure; Canada First Research Excellence Fund; Biotechnology and Biological Sciences Research Council; Grantová Agentura České Republiky; Gatsby Charitable Foundation; Genome Canada","keywords":"Biology; Genome; Triticeae; Hordeum vulgare; Sequence (biology); Sequence assembly; Hybrid genome assembly; Computational biology; Whole genome sequencing; Reference genome; k-mer; Genetics; Gene; Botany; Transcriptome; Poaceae","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":[0.005396174,0.001118385,0.0008647339,0.0007711878,0.001287002,0.001966891,0.001267144,0.001069335,0.001820602],"category_scores_gemma":[0.007786627,0.0003614163,0.0009402148,0.00162356,0.0005558241,0.001024742,0.0008328152,0.0006127643,0.001526868],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.002287199,"about_ca_system_score_gemma":0.001516001,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00834406,"about_ca_topic_score_gemma":0.0115681,"domain_scores_codex":[0.9970054,0.0005333789,0.0003082815,0.0007215916,0.001201045,0.0002302876],"domain_scores_gemma":[0.9965022,0.001022932,0.0003148519,0.0004562874,0.001397786,0.0003060008],"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":[0.0016259,0.0002136602,0.004521278,0.001365643,0.0001484646,0.0007385195,0.0005743262,0.005847159,0.9079824,0.000706961,0.001103232,0.07517249],"study_design_scores_gemma":[0.00008808115,0.001800292,0.0181769,0.0001503894,0.0003612787,0.001083036,0.0005453115,0.02023593,0.9302889,0.0004213646,0.02672684,0.0001217132],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.7671154,0.01243753,0.2065673,0.0006716377,0.0006593214,0.0007560873,0.003600362,0.003616074,0.004576432],"genre_scores_gemma":[0.4931516,0.01093532,0.4652231,0.0003872439,0.0001322174,0.0005062896,0.01679693,0.002416697,0.0104506],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.00834406,"threshold_uncertainty_score":0.02853805,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03528134001288496,"score_gpt":0.2687956796789536,"score_spread":0.2335143396660686,"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."}}