{"id":"W4401482693","doi":"10.1002/cpz1.1120","title":"Setting Up the JBrowse 2 Genome Browser","year":2024,"lang":"en","type":"article","venue":"Current Protocols","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":2,"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":"Computational biology; Genome; Computer science; Biology; Genetics; Gene","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":[0.00494076,0.001704787,0.001650177,0.00392146,0.001589432,0.002890047,0.004538307,0.001922797,0.09255228],"category_scores_gemma":[0.007167606,0.003737037,0.001632807,0.002456061,0.0005096277,0.002820607,0.003342877,0.006145185,0.162601],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0008772977,"about_ca_system_score_gemma":0.002223276,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.004167316,"about_ca_topic_score_gemma":0.005504065,"domain_scores_codex":[0.9968996,0.0005649694,0.0004002943,0.0007005607,0.001096028,0.0003385094],"domain_scores_gemma":[0.9977086,0.0004152696,0.0001282566,0.0006443051,0.0007642211,0.0003394271],"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":[0.0007080819,0.0002113599,0.001333595,0.001548689,0.0002037823,0.0004642583,0.0004402658,0.0006581611,0.158956,0.006945448,0.7546478,0.07388262],"study_design_scores_gemma":[0.0001154482,0.00005190139,0.00146772,0.0003274782,0.00005024424,0.000441296,0.0001030618,0.001350224,0.06210433,0.003415768,0.9304118,0.0001608185],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.008659195,0.002548349,0.3581741,0.002000622,0.002291424,0.003234892,0.3539579,0.2251599,0.04397364],"genre_scores_gemma":[0.01371509,0.002062561,0.5410329,0.001698924,0.0003006029,0.007897194,0.3499005,0.04710608,0.03628615],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.09255228,"threshold_uncertainty_score":0.3096182,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03264182508206101,"score_gpt":0.3384350446391596,"score_spread":0.3057932195570986,"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."}}