{"id":"W3174992442","doi":"10.1093/bioinformatics/btab459","title":"JBrowseR: an R interface to the JBrowse 2 genome browser","year":2021,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":26,"is_retracted":false,"has_abstract":true,"ca_institutions":"Ontario Institute for Cancer Research","funders":"National Institute of General Medical Sciences; National Cancer Institute; National Human Genome Research Institute; National Institutes of Health","keywords":"Genome browser; Computer science; Interface (matter); Web browser; Variety (cybernetics); Visualization; Download; World Wide Web; Source code; Genome; User interface; Software; Code (set theory); The Internet; Genomics; Operating system; Biology; Programming language; Set (abstract data type); Genetics; Data mining","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001501514,0.0001570412,0.0001255784,0.00002144845,0.000151901,0.00007353861,0.0003268394,0.00007843412,0.00003115151],"category_scores_gemma":[0.00006665676,0.0001179994,0.00007293579,0.0001152164,0.00004203113,0.00000221658,0.0003640144,0.00006728234,0.0001304297],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000113993,"about_ca_system_score_gemma":0.00008039106,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000006379793,"about_ca_topic_score_gemma":0.0001061008,"domain_scores_codex":[0.9991416,0.00003057383,0.0002624961,0.0001805088,0.0001193006,0.0002655373],"domain_scores_gemma":[0.9990132,0.000008850954,0.00005845685,0.0006551699,0.0001439901,0.0001203029],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","study_design_scores_codex":[0.00008088611,0.0001511704,0.001384395,0.00007674031,0.0002886823,0.00000605291,0.004778059,0.003918293,0.9514948,0.0004964878,0.02112415,0.01620035],"study_design_scores_gemma":[0.0002966032,0.0003053269,0.006573715,0.000007458844,0.00002682474,0.0000472157,0.001959288,0.0005235801,0.09980386,0.0000558411,0.8900766,0.0003236642],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9845618,0.001568541,0.006104773,0.001036175,0.0003818288,0.0002500956,0.00007798236,0.00000967062,0.006009126],"genre_scores_gemma":[0.9809901,0.0003301934,0.01337882,0.002990496,0.0003594428,0.00002564709,0.00008336551,0.00002541502,0.001816564],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.8689525,"threshold_uncertainty_score":0.4811874,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01320621129648441,"score_gpt":0.2460707830635001,"score_spread":0.2328645717670157,"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."}}