{"id":"W4205393791","doi":"10.17504/protocols.io.b3viqn4e","title":"Generating 1200bp tiled Amplicons for SARS-CoV2 Whole Genome Sequencing v2","year":2022,"lang":"en","type":"preprint","venue":"","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"BC Centre for Disease Control","funders":"","keywords":"Minion; Amplicon; Nanopore sequencing; Amplicon sequencing; Genome; Computational biology; Biology; DNA sequencing; Illumina dye sequencing; Whole genome sequencing; Genetics; Gene; Polymerase chain reaction","routes":{"ca_aff":true,"ca_fund":false,"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":[0.001536121,0.001539325,0.001391192,0.001627573,0.001196982,0.001279178,0.001268505,0.001441298,0.03833568],"category_scores_gemma":[0.002724707,0.001865905,0.001498314,0.001335685,0.0007574589,0.0006214613,0.001944812,0.002823926,0.05271209],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000418625,"about_ca_system_score_gemma":0.0009823546,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001173819,"about_ca_topic_score_gemma":0.004229285,"domain_scores_codex":[0.9983601,0.0001731558,0.0001133082,0.0007338999,0.0003727601,0.0002467489],"domain_scores_gemma":[0.9993322,0.0001703579,0.00004518885,0.0002554092,0.0001331164,0.00006376339],"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":[0.000878286,0.0001560201,0.001768305,0.001216792,0.0001694051,0.0005483419,0.0007618112,0.002259993,0.887844,0.006329909,0.04906455,0.04900255],"study_design_scores_gemma":[0.0001966045,0.0002987923,0.005376621,0.0002419527,0.0001538438,0.0008160134,0.0001636514,0.007719574,0.6211188,0.00556385,0.3581706,0.0001796598],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.05209081,0.001289851,0.6694791,0.000428365,0.001051917,0.004152717,0.2045953,0.03597268,0.03093924],"genre_scores_gemma":[0.040635,0.0006132779,0.5654836,0.0008029675,0.0001250786,0.004639222,0.3379021,0.01709823,0.03270055],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.03833568,"threshold_uncertainty_score":0.1282457,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04002546634538743,"score_gpt":0.2843775725278413,"score_spread":0.2443521061824539,"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."}}