{"id":"W2162473677","doi":"10.1093/bioinformatics/btv361","title":"MetaPathways v2.5: quantitative functional, taxonomic and usability improvements","year":2015,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":53,"is_retracted":false,"has_abstract":true,"ca_institutions":"Genome British Columbia; University of British Columbia","funders":"Pacific Northwest National Laboratory; Natural Sciences and Engineering Research Council of Canada; Genome Alberta; University of British Columbia; Genome British Columbia; Genome Canada; Tula Foundation; Canadian Institute for Advanced Research; Western Canada Research Grid; Compute Canada","keywords":"Computer science; Usability; Pipeline (software); Annotation; Software; Data mining; Information retrieval; Artificial intelligence; Human–computer interaction; Programming language","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":[0.01270201,0.00564182,0.001983171,0.004986025,0.002064745,0.004281958,0.00832044,0.001829925,0.03150194],"category_scores_gemma":[0.02391075,0.003119363,0.00419792,0.006044284,0.0008584988,0.005478192,0.006286115,0.005120832,0.02365478],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001668123,"about_ca_system_score_gemma":0.003833368,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.005142441,"about_ca_topic_score_gemma":0.006743498,"domain_scores_codex":[0.9927934,0.001715975,0.0007786042,0.001651669,0.002425573,0.0006346994],"domain_scores_gemma":[0.9885448,0.004027125,0.0009888439,0.003656522,0.001978372,0.0008043646],"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":[0.007898731,0.0009071382,0.02745202,0.005450148,0.001942098,0.0008000086,0.001508257,0.007211024,0.08464468,0.007246064,0.597559,0.2573808],"study_design_scores_gemma":[0.001509133,0.001155978,0.02749838,0.001371024,0.001098553,0.001584439,0.0008072222,0.09301652,0.1697294,0.02034932,0.6805209,0.001359154],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"software","genre_gemma":"software","genre_scores_codex":[0.02139266,0.0005744569,0.1705363,0.0009053274,0.0005329332,0.0007082324,0.08498173,0.7151906,0.005177762],"genre_scores_gemma":[0.08072729,0.0008055627,0.4447661,0.0009704744,0.0001807494,0.002764667,0.2634487,0.2003828,0.005953739],"genre_candidate":"software","genre_consensus":"software","teacher_disagreement_score":0.03150194,"threshold_uncertainty_score":0.1053845,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.05624295090273047,"score_gpt":0.2580242905753689,"score_spread":0.2017813396726384,"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."}}