{"id":"W2580812863","doi":"10.1093/bioinformatics/btw813","title":"BioPAXViz: a cytoscape application for the visual exploration of metabolic pathway evolution","year":2017,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Microbial Metabolic Engineering and Bioproduction","field":"Biochemistry, Genetics and Molecular Biology","cited_by":7,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"","keywords":"Visualization; Computer science; Documentation; Parsing; MIT License; Pathway analysis; Software; Metabolic pathway; Computational biology; Bioinformatics; Data mining; Biology; Programming language","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":[0.0009965593,0.001842491,0.001060646,0.003977924,0.001025727,0.001981305,0.00261715,0.001495038,0.08923596],"category_scores_gemma":[0.003733555,0.001058114,0.001537658,0.002168006,0.0003388581,0.002108277,0.002396585,0.002793101,0.02794827],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0007758429,"about_ca_system_score_gemma":0.001664352,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00573123,"about_ca_topic_score_gemma":0.006618449,"domain_scores_codex":[0.9994129,0.0000679986,0.0000403472,0.0001446979,0.0002612945,0.00007272491],"domain_scores_gemma":[0.9986588,0.0006700007,0.0001001327,0.0001568899,0.0002283194,0.0001858167],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"not_applicable","study_design_scores_codex":[0.0006788971,0.0001579691,0.002070791,0.00435233,0.000465373,0.0009702463,0.0006023621,0.005037978,0.04051762,0.007333659,0.801704,0.1361087],"study_design_scores_gemma":[0.0005533673,0.0001309316,0.009974903,0.0006931156,0.0001849799,0.001321327,0.0001436831,0.05218955,0.0642705,0.02714142,0.8429098,0.0004863979],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"software","genre_gemma":"software","genre_scores_codex":[0.01016165,0.001503117,0.2049936,0.000939508,0.0007173814,0.000645209,0.199056,0.5626194,0.01936397],"genre_scores_gemma":[0.0685538,0.002718003,0.3724799,0.001835251,0.0003740407,0.003480484,0.3916485,0.1276778,0.03123236],"genre_candidate":"software","genre_consensus":"software","teacher_disagreement_score":0.08923596,"threshold_uncertainty_score":0.298524,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0147237461121498,"score_gpt":0.258351886175361,"score_spread":0.2436281400632112,"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."}}