{"id":"W2789853766","doi":"10.1093/bioinformatics/bty075","title":"chromswitch: a flexible method to detect chromatin state switches","year":2018,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":13,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University; Jewish General Hospital","funders":"Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research; Compute Canada","keywords":"Bioconductor; Epigenomics; Chromatin; Computer science; Benchmarking; Key (lock); Epigenetics; Source code; State (computer science); Data mining; Computational biology; Biology; Gene; DNA methylation; Gene expression; Programming language; Genetics; Operating system","routes":{"ca_aff":true,"ca_fund":true,"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":[0.001767938,0.001568075,0.00127923,0.003323995,0.001084783,0.002049675,0.002082917,0.001124404,0.02706031],"category_scores_gemma":[0.006342755,0.001159416,0.001974683,0.002225901,0.0006314971,0.001351638,0.002530487,0.001693887,0.007259694],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0008077567,"about_ca_system_score_gemma":0.001699577,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003633926,"about_ca_topic_score_gemma":0.01143779,"domain_scores_codex":[0.9987532,0.0001480485,0.00007855722,0.0005604019,0.00033824,0.0001214856],"domain_scores_gemma":[0.9983248,0.000927782,0.0001645863,0.0002934259,0.0001776796,0.000111729],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.003306431,0.0003230948,0.03772257,0.003146139,0.002237348,0.0008660866,0.00071891,0.03033788,0.09822592,0.01388348,0.3949512,0.414281],"study_design_scores_gemma":[0.0009858328,0.0005545529,0.05454778,0.000310984,0.0007332717,0.001385719,0.0002710093,0.4791937,0.1436656,0.06605093,0.2515506,0.0007499753],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.03694243,0.00147178,0.5570491,0.0003766872,0.0006283306,0.0004875629,0.09869397,0.2976727,0.006677331],"genre_scores_gemma":[0.2446364,0.0006980908,0.5501976,0.001180766,0.0003453747,0.002830103,0.1342956,0.05460997,0.01120619],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.02706031,"threshold_uncertainty_score":0.09052575,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01150980567491912,"score_gpt":0.2669648109639451,"score_spread":0.255455005289026,"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."}}