{"id":"W4221007687","doi":"10.1093/bioinformatics/btac128","title":"SomaticSiMu: a mutational signature simulator","year":2022,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Waterloo; Western University","funders":"Compute Canada","keywords":"Python (programming language); Computer science; Visualization; Data mining; Signature (topology); Graphical user interface; Open source; Source code; Software; Computational biology; Artificial intelligence; Programming language; 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":[0.0001174489,0.0001082067,0.00009203118,0.00003501331,0.0002678489,0.00001759097,0.0001775236,0.00004252098,0.00006790221],"category_scores_gemma":[0.00003397274,0.0001073618,0.000069553,0.00007538017,0.00003338833,8.223375e-7,0.0002786067,0.00008176133,0.00001345104],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001662265,"about_ca_system_score_gemma":0.00007629414,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000001329767,"about_ca_topic_score_gemma":0.000001346172,"domain_scores_codex":[0.999312,0.0000190424,0.0002169492,0.0001007658,0.0001839051,0.0001673003],"domain_scores_gemma":[0.9996008,0.00001472481,0.00009114182,0.0002002206,0.00004659572,0.0000465053],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"simulation_or_modeling","study_design_gemma":"not_applicable","study_design_scores_codex":[0.0004487415,0.000866444,0.01384212,0.0004308877,0.001442965,0.00003106623,0.01012475,0.4502324,0.3160018,0.009837795,0.1658778,0.0308633],"study_design_scores_gemma":[0.002429304,0.001177077,0.00740787,0.000007791988,0.00007881448,0.0001407026,0.004973833,0.09415801,0.01433116,0.001973043,0.8722495,0.00107288],"study_design_candidate":"not_applicable","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9921866,0.0008002527,0.00209919,0.000174046,0.000388191,0.0002644753,0.0002215016,0.00001054754,0.003855193],"genre_scores_gemma":[0.9919293,0.00001854743,0.006445685,0.0008357933,0.0001123307,0.00003474014,0.0001529492,0.00001339252,0.0004572779],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.7063718,"threshold_uncertainty_score":0.4378086,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.008138215293260502,"score_gpt":0.222538426452493,"score_spread":0.2144002111592325,"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."}}