{"id":"W4408212560","doi":"10.1093/bioinformatics/btaf094","title":"ENACT: End-to-End Analysis of Visium High Definition (HD) Data","year":2025,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Single-cell and spatial transcriptomics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":13,"is_retracted":false,"has_abstract":true,"ca_institutions":"Sanofi (Canada)","funders":"","keywords":"End-to-end principle; Computer science; End user; Operating system; Computer network","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":[0.0001951846,0.0001259584,0.0002344174,0.0002274322,0.00005123456,0.00002911235,0.00041761,0.0001275792,0.00003905928],"category_scores_gemma":[0.00008946861,0.000118817,0.00009791041,0.0005115531,0.00004831604,0.00001117317,0.0001890862,0.00005625338,0.00001095671],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001299698,"about_ca_system_score_gemma":0.00008648796,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001091506,"about_ca_topic_score_gemma":0.0001586584,"domain_scores_codex":[0.9990787,0.00001665246,0.000426306,0.0001674219,0.0001425574,0.0001683714],"domain_scores_gemma":[0.9989303,0.00002234151,0.0001081529,0.0007939754,0.00008826731,0.00005695011],"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":[0.0008012569,0.001064599,0.02356352,0.001223138,0.008227265,0.000005154119,0.001722836,0.003715947,0.7489494,0.01087917,0.04182725,0.1580204],"study_design_scores_gemma":[0.003220393,0.0009548392,0.03609976,0.0001911878,0.005582727,0.000005970598,0.001186471,0.09952293,0.6557191,0.000638585,0.1953814,0.001496601],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.7854193,0.0002840574,0.1905182,0.0003527365,0.0006095839,0.000344199,0.001765928,0.00003755533,0.02066839],"genre_scores_gemma":[0.9792041,0.0001357318,0.01586947,0.0007038983,0.00004593223,0.000004027769,0.003819024,0.000007816904,0.0002100656],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1937847,"threshold_uncertainty_score":0.4845216,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02679882034336073,"score_gpt":0.261496189409761,"score_spread":0.2346973690664003,"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."}}