{"id":"W2914992431","doi":"10.21105/joss.01186","title":"sierra-local: A lightweight standalone application for drug resistance prediction","year":2019,"lang":"en","type":"article","venue":"The Journal of Open Source Software","topic":"HIV/AIDS drug development and treatment","field":"Medicine","cited_by":7,"is_retracted":false,"has_abstract":true,"ca_institutions":"Western University","funders":"Canadian Institutes of Health Research; Government of Canada; Ontario Genomics; Ontario Genomics Institute; Genome Canada","keywords":"Resistance (ecology); Computer science; Environmental science; Ecology; Biology","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":[0.0009999572,0.0001433695,0.0003592354,0.00007871971,0.0001629473,0.00004424444,0.0003528128,0.00005193608,0.00009222219],"category_scores_gemma":[0.00006766579,0.00008483663,0.0001117837,0.0001822154,0.00004517343,0.0002152335,0.00007083433,0.0001850829,0.00005451451],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002053595,"about_ca_system_score_gemma":0.0002168993,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000005586962,"about_ca_topic_score_gemma":0.00001450223,"domain_scores_codex":[0.9987682,0.00006075474,0.0004498236,0.0001382599,0.0003964773,0.0001865057],"domain_scores_gemma":[0.9986029,0.000220061,0.0004079371,0.0003212638,0.0003340145,0.0001138082],"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":[0.02737015,0.001945058,0.1288875,0.001100137,0.002967925,0.00005334455,0.03766662,0.0007082063,0.005052948,0.0008127663,0.6873394,0.1060959],"study_design_scores_gemma":[0.007129016,0.0002999575,0.005163831,0.0006809789,0.0005977778,0.0001529349,0.001781529,0.0001670542,0.005773646,0.001036449,0.9770269,0.0001899462],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.5099735,0.003013363,0.4489622,0.02846392,0.0004675563,0.006152596,0.00006629836,0.000125557,0.00277498],"genre_scores_gemma":[0.7868969,0.0002038193,0.01783492,0.0004356419,0.0002943623,0.0000752247,0.0000554487,0.00007206506,0.1941316],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.4311273,"threshold_uncertainty_score":0.3459537,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0105056349353525,"score_gpt":0.268980868568465,"score_spread":0.2584752336331125,"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."}}