{"id":"W4316926479","doi":"10.1093/bioinformatics/btad032","title":"JBrowse Jupyter: a Python interface to JBrowse 2","year":2023,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":7,"is_retracted":false,"has_abstract":true,"ca_institutions":"Ontario Institute for Cancer Research","funders":"National Institute of General Medical Sciences; National Human Genome Research Institute; National Institutes of Health","keywords":"Python (programming language); Computer science; Programming language; Interface (matter); Operating system","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":[0.005602944,0.003033731,0.002327728,0.00269649,0.001679926,0.004029264,0.007174361,0.001719867,0.1208711],"category_scores_gemma":[0.01410287,0.003128768,0.002721576,0.002344964,0.001685059,0.005507038,0.006791621,0.006309513,0.1469786],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0009224095,"about_ca_system_score_gemma":0.003433947,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.004035129,"about_ca_topic_score_gemma":0.003310869,"domain_scores_codex":[0.9972923,0.0005020823,0.0002608132,0.0005880159,0.0009216063,0.0004351513],"domain_scores_gemma":[0.9955667,0.001663598,0.0003794473,0.000877021,0.0009422086,0.0005710344],"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":[0.0009477812,0.0001584072,0.001961762,0.001755289,0.0002493529,0.0003639152,0.0006307758,0.002683213,0.01294957,0.007875519,0.9007044,0.06971985],"study_design_scores_gemma":[0.0006309617,0.0001081849,0.0039553,0.0005991089,0.000121191,0.000624251,0.000142276,0.02912313,0.03031149,0.02918657,0.9046851,0.0005125002],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"software","genre_gemma":"software","genre_scores_codex":[0.001759674,0.0004411134,0.2128006,0.0005625137,0.0003708464,0.0003008559,0.036646,0.7384738,0.008644619],"genre_scores_gemma":[0.01884473,0.0007655347,0.2785802,0.001516489,0.0002527199,0.002072868,0.1014204,0.5785577,0.01798945],"genre_candidate":"software","genre_consensus":"software","teacher_disagreement_score":0.1208711,"threshold_uncertainty_score":0.404354,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01484453589691458,"score_gpt":0.26097935467307,"score_spread":0.2461348187761554,"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."}}