{"id":"W2514454343","doi":"10.1093/bioinformatics/btw569","title":"Nanocall: an open source basecaller for Oxford Nanopore sequencing data","year":2016,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":143,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto; Ontario Institute for Cancer Research","funders":"Canadian Institutes of Health Research; University of Nottingham; Oxford Nanopore Technologies","keywords":"Minion; Nanopore sequencing; Computer science; DNA sequencer; MIT License; DNA sequencing; Nanopore; Open source; Computational biology; Hybrid genome assembly; DNA; Biology; Reference genome; Genetics; Operating system; Software; Engineering","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":[0.005171368,0.002770403,0.002394672,0.002133345,0.001523991,0.002861258,0.006289079,0.002491794,0.06083064],"category_scores_gemma":[0.01738423,0.002258264,0.0014778,0.00154879,0.0009070734,0.003792239,0.003812692,0.003040895,0.04524883],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.002089007,"about_ca_system_score_gemma":0.003236814,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.007929385,"about_ca_topic_score_gemma":0.01252337,"domain_scores_codex":[0.9944479,0.0005651751,0.000586272,0.001603502,0.002397961,0.0003991193],"domain_scores_gemma":[0.9934499,0.002153608,0.0006328499,0.001625983,0.001535795,0.0006018883],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"not_applicable","study_design_scores_codex":[0.00350195,0.0001501065,0.005222338,0.003629265,0.0006017835,0.0008902591,0.0007808301,0.005000538,0.1002702,0.007804129,0.7179381,0.1542105],"study_design_scores_gemma":[0.0009423707,0.0003340607,0.006435585,0.0006612333,0.0002430093,0.001578915,0.0002760279,0.07280499,0.2903011,0.01620756,0.6091565,0.001058551],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"software","genre_gemma":"software","genre_scores_codex":[0.007590911,0.00124729,0.2030279,0.0007750762,0.0005746299,0.0007090875,0.07150655,0.70437,0.01019853],"genre_scores_gemma":[0.05401143,0.0007150603,0.5137478,0.002727946,0.0001925645,0.002884901,0.1894348,0.2171194,0.01916601],"genre_candidate":"software","genre_consensus":"software","teacher_disagreement_score":0.06083064,"threshold_uncertainty_score":0.2034988,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.06328263123334449,"score_gpt":0.2926303886907501,"score_spread":0.2293477574574057,"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."}}