{"id":"W4416648127","doi":"10.5256/f1000research.5691.r8632","title":"Referee report. For: shinyMethyl: interactive quality control of Illumina 450k DNA methylation arrays in R [v2; indexed, http://f1000r.es/4e3]","year":2015,"lang":"en","type":"article","venue":"Faculty of 1000 Research Ltd","topic":"Epigenetics and DNA Methylation","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":false,"ca_institutions":"","funders":"Natural Sciences and Engineering Research Council of Canada; Johns Hopkins University","keywords":"DNA methylation; Quality (philosophy); DNA; Methylation; Epigenetics; Control (management)","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":["metaresearch","insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.00747066,0.001230516,0.001789597,0.004864037,0.002881964,0.001957326,0.003740042,0.003243524,0.6404349],"category_scores_gemma":[0.06271789,0.0008759755,0.001672082,0.004169977,0.0008852627,0.002043084,0.004060581,0.003122826,0.3646396],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.003324216,"about_ca_system_score_gemma":0.003797483,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.02550134,"about_ca_topic_score_gemma":0.03977745,"domain_scores_codex":[0.9951434,0.0009871235,0.000555338,0.0007764887,0.002179214,0.000358466],"domain_scores_gemma":[0.9431622,0.009022884,0.001085815,0.004372246,0.03963945,0.002717501],"domain_codex":null,"domain_gemma":"evaluation","domain_candidate":"evaluation","domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"not_applicable","study_design_scores_codex":[0.00002625143,0.00001203479,0.00004364243,0.00008134831,0.000004647891,0.00003935309,0.00002092007,0.00001921602,0.0003006218,0.0002231567,0.9916131,0.007615631],"study_design_scores_gemma":[0.00004305311,0.00002164821,0.001066657,0.00008922921,0.0000184774,0.0001596034,0.00006364578,0.0001219605,0.0008058682,0.001438016,0.9961239,0.00004791282],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"editorial","genre_gemma":"commentary","genre_scores_codex":[0.001400481,0.00739823,0.03240947,0.2045141,0.4689574,0.002078009,0.1365098,0.01596576,0.1307668],"genre_scores_gemma":[0.01138298,0.005140594,0.02505211,0.04646001,0.05087159,0.002232353,0.07386386,0.008575156,0.7764214],"genre_candidate":"commentary","genre_consensus":null,"teacher_disagreement_score":0.9925293,"threshold_uncertainty_score":0.512876,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.08720616222785181,"score_gpt":0.4202033163250393,"score_spread":0.3329971540971875,"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."}}