{"id":"W2996913857","doi":"10.1186/s12859-019-3292-5","title":"LMAP_S: Lightweight Multigene Alignment and Phylogeny eStimation","year":2019,"lang":"en","type":"article","venue":"BMC Bioinformatics","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":6,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Australian National University; University of Ottawa; Konkuk University; Helsingin Yliopisto","keywords":"Workflow; Computer science; Software; Data mining; File format; DNA microarray; Workstation; Biology; Database; Gene; Programming language","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001139862,0.0001517051,0.0001364741,0.00003286156,0.00006727871,0.00003001988,0.0001039784,0.00009867812,0.00001217323],"category_scores_gemma":[0.00002066988,0.0001312595,0.00004953632,0.00004035882,0.00004159188,0.000001990494,0.0001457645,0.00003527288,0.00007679445],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000009552887,"about_ca_system_score_gemma":0.00003332231,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000004095384,"about_ca_topic_score_gemma":0.000008054494,"domain_scores_codex":[0.9992833,0.00001271625,0.0002531713,0.0001553696,0.0001038635,0.0001916422],"domain_scores_gemma":[0.9994954,0.00001265835,0.00009905059,0.0002876536,0.00004126043,0.00006401123],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.0001629803,0.0001982199,0.09248645,0.0008323206,0.0004245822,0.000001136056,0.002546165,0.008059675,0.8485052,0.001923498,0.004879834,0.03997995],"study_design_scores_gemma":[0.004600405,0.001549623,0.1721038,0.00009199664,0.0001473304,0.00007266266,0.001868462,0.3552688,0.2888928,0.0008194358,0.1728119,0.001772787],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.983179,0.001102111,0.01212404,0.00003065131,0.0002288384,0.0003619769,0.00002686662,0.000006670784,0.002939802],"genre_scores_gemma":[0.8907635,0.0004493769,0.1078207,0.0002441652,0.00007522611,0.00001567892,0.00006094777,0.00001475162,0.0005557506],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.5596123,"threshold_uncertainty_score":0.5352607,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.008499432732594413,"score_gpt":0.2180940637256301,"score_spread":0.2095946309930357,"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."}}