{"id":"W3216907910","doi":"10.1016/j.diagmicrobio.2021.115606","title":"SARS-CoV-2 variant detection with ADSSpike","year":2021,"lang":"en","type":"article","venue":"Diagnostic Microbiology and Infectious Disease","topic":"SARS-CoV-2 and COVID-19 Research","field":"Medicine","cited_by":6,"is_retracted":false,"has_abstract":true,"ca_institutions":"Calgary Laboratory Services; University of Calgary","funders":"Canadian Institutes of Health Research; Genome Canada","keywords":"Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2); Pandemic; Coronavirus disease 2019 (COVID-19); 2019-20 coronavirus outbreak; Single-nucleotide polymorphism; Amplicon; Computational biology; Workflow; Preparedness; Virology; Biology; Genetics; Medicine; Gene; Computer science; Infectious disease (medical specialty); Polymerase chain reaction; Genotype; Disease","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":[0.001274911,0.000836539,0.0005685428,0.001139221,0.0004865976,0.001139679,0.0007339284,0.0009128816,0.003510739],"category_scores_gemma":[0.002078914,0.000549203,0.0008748515,0.0005486844,0.0003677006,0.0006050512,0.001235363,0.0007279904,0.002158659],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004312585,"about_ca_system_score_gemma":0.0006293749,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001538106,"about_ca_topic_score_gemma":0.003970682,"domain_scores_codex":[0.9988201,0.0001536141,0.0001102063,0.0004412981,0.0003769708,0.00009768833],"domain_scores_gemma":[0.9991037,0.0002434034,0.0001263556,0.0001505536,0.0002734615,0.0001024656],"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":[0.001798903,0.0003510609,0.05893866,0.0008435369,0.0003695624,0.0008266119,0.0007935428,0.006008909,0.7700923,0.001577253,0.01463856,0.143761],"study_design_scores_gemma":[0.0001508897,0.0009026018,0.04577144,0.000183119,0.0001692342,0.002029279,0.0007706929,0.1187382,0.786032,0.003742712,0.04127537,0.0002345203],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.6735954,0.002156199,0.2567033,0.0009226785,0.000450006,0.0007675347,0.02306817,0.02563629,0.01670054],"genre_scores_gemma":[0.5494571,0.0005977046,0.4189173,0.001211786,0.0000931235,0.0004492971,0.02137008,0.001254946,0.006648665],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.003510739,"threshold_uncertainty_score":0.01174462,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01327313713935977,"score_gpt":0.2808680274965051,"score_spread":0.2675948903571453,"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."}}