{"id":"W4376871556","doi":"10.1093/nar/gkad382","title":"PHASTEST: faster than PHASTER, better than PHAST","year":2023,"lang":"en","type":"article","venue":"Nucleic Acids Research","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":589,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Alberta","funders":"Canadian Institutes of Health Research; Genome Alberta; Genome Canada","keywords":"Prophage; Genome; Bacterial genome size; Annotation; Biology; GenBank; Visualization; Computational biology; Genome project; Genetics; Computer science; Gene; Data mining; Bacteriophage","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":[0.00281251,0.002603196,0.002256402,0.001990801,0.001130453,0.004466906,0.002789056,0.002255844,0.06492577],"category_scores_gemma":[0.008090683,0.00251098,0.00261454,0.001884763,0.0007055343,0.005546608,0.002900142,0.004086542,0.04862455],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0008737323,"about_ca_system_score_gemma":0.001775108,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003096366,"about_ca_topic_score_gemma":0.002543545,"domain_scores_codex":[0.9979076,0.000384894,0.0001735159,0.0005101486,0.0006448437,0.0003789069],"domain_scores_gemma":[0.9974844,0.0009646081,0.0001778818,0.0005425155,0.0005026039,0.0003279458],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.006275564,0.0002763602,0.005496692,0.003160092,0.0005666149,0.0006673592,0.0007814309,0.004533362,0.05402541,0.01340747,0.6278628,0.2829469],"study_design_scores_gemma":[0.001429391,0.0006168936,0.004077859,0.0007787244,0.0002814796,0.001047545,0.0001919548,0.05914855,0.09857246,0.01852715,0.8146458,0.0006821282],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"software","genre_gemma":"methods","genre_scores_codex":[0.01805695,0.008033255,0.1825522,0.001205712,0.001637571,0.0004459673,0.02140168,0.7407894,0.02587731],"genre_scores_gemma":[0.1344737,0.006568389,0.4527297,0.003180418,0.00074545,0.001663079,0.1235229,0.2139557,0.06316068],"genre_candidate":"methods","genre_consensus":null,"teacher_disagreement_score":0.06492577,"threshold_uncertainty_score":0.2171983,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.05710669052715073,"score_gpt":0.3415770212536993,"score_spread":0.2844703307265485,"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."}}