{"id":"W4310786235","doi":"10.1093/nargab/lqac092","title":"PBSIM3: a simulator for all types of PacBio and ONT long reads","year":2022,"lang":"en","type":"article","venue":"NAR Genomics and Bioinformatics","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":106,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Institute of Genetics; Japan Society for the Promotion of Science","keywords":"Computer science; Nanopore sequencing; High fidelity; Fidelity; Throughput; DNA sequencing; Operating system; Engineering; Wireless; Telecommunications","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001939683,0.0001176894,0.0001683937,0.00003508116,0.0001446885,0.00001594242,0.00009250332,0.00005433556,0.00000315455],"category_scores_gemma":[0.00001866957,0.0001102489,0.00005237097,0.00003010825,0.00006463929,0.000001078855,0.0002893498,0.00004535076,2.69194e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001175616,"about_ca_system_score_gemma":0.00004542494,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000009415555,"about_ca_topic_score_gemma":0.00001303653,"domain_scores_codex":[0.9993767,0.000009986746,0.0002558019,0.0001301871,0.00006550111,0.0001618233],"domain_scores_gemma":[0.9995914,0.00002092368,0.0001257915,0.0001594577,0.00004917385,0.00005325833],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","study_design_scores_codex":[0.001479566,0.0004292693,0.0378825,0.001489705,0.001973802,0.000004538107,0.01138991,0.008140444,0.8237277,0.003429534,0.00621766,0.1038353],"study_design_scores_gemma":[0.005555527,0.005947318,0.01302777,0.0000249909,0.00041421,0.0001376391,0.00564544,0.0646591,0.07997321,0.001723969,0.8213864,0.001504439],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9955359,0.002903262,0.000594012,0.0000874671,0.00008986152,0.0002932575,0.0002834658,0.000001997186,0.0002107479],"genre_scores_gemma":[0.9922605,0.001182208,0.005990548,0.000290722,0.0000543862,0.00002063138,0.00007318408,0.00001388758,0.0001139498],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.8151687,"threshold_uncertainty_score":0.4495822,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01094207650555211,"score_gpt":0.2306906389217082,"score_spread":0.2197485624161561,"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."}}