{"id":"W2604472817","doi":"10.1093/bioinformatics/btx202","title":"EzMap: a simple pipeline for reproducible analysis of the human virome","year":2017,"lang":"en","type":"article","venue":"Bioinformatics","topic":"vaccines and immunoinformatics approaches","field":"Biochemistry, Genetics and Molecular Biology","cited_by":8,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Calgary; Libin Cardiovascular Institute of Alberta; Alberta Children's Hospital","funders":"Alberta Children's Hospital Research Institute; Canada Foundation for Innovation","keywords":"Human virome; Computer science; Metagenomics; Computational biology; Pipeline (software); Workstation; Data mining; Biology; Programming language; Genetics","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":[0.0003834373,0.0001266269,0.0002407629,0.00006387845,0.0004311616,0.00007653736,0.0006815807,0.00009154942,0.000009104648],"category_scores_gemma":[0.0003035705,0.00008592286,0.0003192907,0.0001088129,0.00008160288,0.00001709501,0.000324326,0.00004692628,0.000002055098],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000006868907,"about_ca_system_score_gemma":0.00003582585,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002546636,"about_ca_topic_score_gemma":0.00003376389,"domain_scores_codex":[0.9990651,0.000007236618,0.0005017873,0.0001241901,0.0001182241,0.0001834715],"domain_scores_gemma":[0.9973312,0.000007855963,0.000597627,0.001903713,0.0001266397,0.00003297894],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0004716413,0.001080888,0.1393217,0.002799093,0.01083809,6.021929e-7,0.005828862,0.007607363,0.6430352,0.01244839,0.1190231,0.05754498],"study_design_scores_gemma":[0.003384145,0.0005606771,0.1823971,0.00005725128,0.002594231,0.000009549278,0.001445736,0.2766948,0.3566521,0.0008607394,0.1743305,0.001013173],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9820315,0.0001042306,0.01170004,0.0002428439,0.0001471341,0.0005544235,0.0002082661,0.0000103502,0.005001165],"genre_scores_gemma":[0.9949609,0.00002831845,0.003530265,0.0001146595,0.00007783868,0.00002155904,0.0002611784,0.00001136583,0.0009938923],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2863831,"threshold_uncertainty_score":0.3503833,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03020564720966971,"score_gpt":0.2895009863056965,"score_spread":0.2592953390960268,"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."}}