{"id":"W4313703084","doi":"10.1093/jalm/jfac109","title":"End-to-End Data Automation for Pooled Sample SARS-CoV-2 Using R and Other Open-Source Tools","year":2023,"lang":"en","type":"article","venue":"The Journal of Applied Laboratory Medicine","topic":"SARS-CoV-2 detection and testing","field":"Medicine","cited_by":6,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia; St. Paul's Hospital; Providence Health Care","funders":"Roche Diagnostics; Genome British Columbia; Canada Foundation for Innovation","keywords":"Open source; Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2); Sample (material); Coronavirus disease 2019 (COVID-19); Automation; End-to-end principle; Computer science; Engineering; Medicine; Operating system; Artificial intelligence; Chemistry; Chromatography","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":[0.01663069,0.004476072,0.001891611,0.003251358,0.0009367129,0.00317007,0.003485787,0.00101742,0.01144463],"category_scores_gemma":[0.03274379,0.001719191,0.002673403,0.001569578,0.00150037,0.002918876,0.004235099,0.002852986,0.01526493],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0009914492,"about_ca_system_score_gemma":0.003682653,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001887324,"about_ca_topic_score_gemma":0.001125409,"domain_scores_codex":[0.9871944,0.003481945,0.001516689,0.003526044,0.003331261,0.0009497163],"domain_scores_gemma":[0.972132,0.009836356,0.00388226,0.008272295,0.00489159,0.0009855131],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"not_applicable","study_design_scores_codex":[0.006654712,0.0009655494,0.04010971,0.002698696,0.001942052,0.002530082,0.002782802,0.01542502,0.2198844,0.01255705,0.1519177,0.5425323],"study_design_scores_gemma":[0.001044136,0.001653576,0.03933679,0.000864653,0.0006884591,0.002790349,0.0004539754,0.1621072,0.5053812,0.02397935,0.2603884,0.001311904],"study_design_candidate":"not_applicable","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"software","genre_scores_codex":[0.01021477,0.0001848823,0.6301094,0.0002700661,0.0001049454,0.0007477708,0.003414087,0.3530463,0.001907758],"genre_scores_gemma":[0.1212521,0.0003350908,0.7927396,0.0007673451,0.0001831449,0.002699704,0.01485372,0.06291435,0.004254962],"genre_candidate":"software","genre_consensus":null,"teacher_disagreement_score":0.01663069,"threshold_uncertainty_score":0.08795255,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.1690189501672731,"score_gpt":0.3877470075653953,"score_spread":0.2187280573981223,"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."}}