{"id":"W2953329757","doi":"10.1101/046086","title":"Nanocall: An Open Source Basecaller for Oxford Nanopore Sequencing Data","year":2016,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":26,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto; Ontario Institute for Cancer Research","funders":"Canadian Institutes of Health Research; Prostate Cancer Canada; Government of Ontario; Oxford Nanopore Technologies; Ontario Institute for Cancer Research; Movember Foundation","keywords":"Nanopore sequencing; Computer science; DNA sequencing; MIT License; Nanopore; Open source; Computational biology; Cloud computing; DNA sequencer; License; DNA; Biology; Nanotechnology; Genetics; Operating system; Software","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":[0.004473486,0.002522471,0.002211313,0.002213534,0.001492487,0.002610578,0.004793604,0.002054608,0.05634483],"category_scores_gemma":[0.01499258,0.002089083,0.001302268,0.001600787,0.0008236117,0.003316537,0.003525748,0.002489488,0.04257074],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.002155056,"about_ca_system_score_gemma":0.002862797,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.008085554,"about_ca_topic_score_gemma":0.01328977,"domain_scores_codex":[0.994586,0.0004780066,0.0005639935,0.001550241,0.002447302,0.0003744925],"domain_scores_gemma":[0.9930091,0.002187996,0.0006714288,0.001793792,0.00175467,0.0005830151],"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":[0.002839839,0.000119597,0.005104369,0.00308296,0.0004857226,0.0008869116,0.0007318144,0.004988343,0.0965161,0.007270919,0.7224669,0.1555066],"study_design_scores_gemma":[0.0007309213,0.0002398784,0.005634903,0.0005771758,0.000179054,0.001303805,0.0002534972,0.06516677,0.3209848,0.01438212,0.5896836,0.000863599],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"software","genre_gemma":"software","genre_scores_codex":[0.009627083,0.001480437,0.1838492,0.0008883093,0.0005832574,0.0006221753,0.07902258,0.7112656,0.01266137],"genre_scores_gemma":[0.07381346,0.0007638874,0.4725993,0.002901875,0.0001855572,0.002656527,0.19519,0.2279116,0.02397785],"genre_candidate":"software","genre_consensus":"software","teacher_disagreement_score":0.05634483,"threshold_uncertainty_score":0.1884922,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04300101391161978,"score_gpt":0.26662559309903,"score_spread":0.2236245791874102,"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."}}