{"id":"W4280590893","doi":"10.1002/cpz1.442","title":"ntEdit+Sealer: Efficient Targeted Error Resolution and Automated Finishing of Long‐Read Genome Assemblies","year":2022,"lang":"en","type":"article","venue":"Current Protocols","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":11,"is_retracted":false,"has_abstract":true,"ca_institutions":"Canada's Michael Smith Genome Sciences Centre; University of British Columbia","funders":"National Human Genome Research Institute; National Institutes of Health; Genome British Columbia; Genome Canada","keywords":"Genome; Bloom filter; Computer science; Sequence assembly; Protocol (science); Pipeline (software); Reference genome; Hybrid genome assembly; Computational biology; Biology; Algorithm; Genetics; Gene","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003045415,0.000152119,0.0001873696,0.00005992208,0.0002353259,0.00002139007,0.0001911914,0.00004672534,0.0000327603],"category_scores_gemma":[0.00005877289,0.0001530018,0.00006614302,0.0001232841,0.0000845707,9.866613e-7,0.0004953611,0.0001117325,0.000001135696],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002335264,"about_ca_system_score_gemma":0.00007778666,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000004762854,"about_ca_topic_score_gemma":0.000003074237,"domain_scores_codex":[0.9988436,0.0001070532,0.0002879263,0.0003401593,0.0001853704,0.0002359262],"domain_scores_gemma":[0.9993965,0.00001331788,0.000181038,0.0002617796,0.00009056144,0.00005681382],"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":[0.0003433406,0.0005707955,0.01159976,0.0004058315,0.0001481507,0.000002821607,0.0007512636,0.01213764,0.9627232,0.0001168377,0.003796285,0.007404085],"study_design_scores_gemma":[0.005268848,0.004809219,0.3593045,0.0002073822,0.0001223206,0.00004517463,0.001019177,0.02138756,0.1114227,0.0001558756,0.494763,0.00149433],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9798686,0.003359833,0.0002298364,0.000051027,0.0002088846,0.01586853,0.0001920549,0.00002410228,0.0001971154],"genre_scores_gemma":[0.9750831,0.00005402238,0.0001917826,0.00001525398,0.0001049851,0.02432532,0.0001372557,0.00001911715,0.00006922019],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.8513005,"threshold_uncertainty_score":0.6239234,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03622646496452005,"score_gpt":0.3272982239662992,"score_spread":0.2910717590017792,"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."}}