{"id":"W6920989774","doi":"10.6084/m9.figshare.c.7735295.v1","title":"ChIPbinner: an R package for analyzing broad histone marks binned in uniform windows from ChIP-Seq or CUT&amp;RUN/TAG data","year":2025,"lang":"en","type":"other","venue":"Figshare","topic":"","field":"","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Bristol-Myers Squibb (Canada); McGill University","funders":"","keywords":"Chromatin; Histone; Principal component analysis; Genome; Identification (biology); Epigenetics; Chromatin immunoprecipitation; Nucleosome; Software","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":[0.006659525,0.005229342,0.00394326,0.003117432,0.0008558249,0.002993996,0.005366835,0.001569732,0.05472913],"category_scores_gemma":[0.02506011,0.002438372,0.003943912,0.002383056,0.001349793,0.001755707,0.003650428,0.004110255,0.03791754],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0009355641,"about_ca_system_score_gemma":0.004049933,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003757941,"about_ca_topic_score_gemma":0.004599685,"domain_scores_codex":[0.9962738,0.001310535,0.0003425463,0.0009310921,0.0008485212,0.0002935374],"domain_scores_gemma":[0.9888113,0.007847143,0.001097273,0.001067432,0.0008222567,0.0003545242],"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":[0.00213434,0.000204223,0.01440066,0.01253322,0.005353277,0.00148435,0.0009311645,0.0288581,0.02795694,0.02244174,0.777353,0.106349],"study_design_scores_gemma":[0.001712564,0.0005219444,0.01818839,0.001542024,0.002294824,0.001833025,0.0002641576,0.1859917,0.06216044,0.06181677,0.6627387,0.0009353299],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"software","genre_gemma":"software","genre_scores_codex":[0.005532562,0.001527328,0.4258535,0.0005897433,0.0004197851,0.0004906987,0.1224401,0.440156,0.002990189],"genre_scores_gemma":[0.04796764,0.00151974,0.5792105,0.001649758,0.0002062483,0.005409366,0.1075364,0.2510071,0.005493165],"genre_candidate":"software","genre_consensus":"software","teacher_disagreement_score":0.05472913,"threshold_uncertainty_score":0.1830872,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.1003015231627979,"score_gpt":0.356431563383332,"score_spread":0.2561300402205341,"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."}}