{"id":"W4416647692","doi":"10.5256/f1000research.5001.r5620","title":"Referee report. For: shinyMethyl: interactive quality control of Illumina 450k DNA methylation arrays in R [v1; indexed, http://f1000r.es/3ux]","year":2014,"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":[0.007296293,0.001265857,0.001861217,0.00479062,0.002874725,0.001920805,0.003770216,0.00325543,0.6387357],"category_scores_gemma":[0.05825378,0.0008975142,0.001689386,0.004112381,0.0008674617,0.001965722,0.004009155,0.003136557,0.3605752],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.003200768,"about_ca_system_score_gemma":0.003565067,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.02471246,"about_ca_topic_score_gemma":0.03752797,"domain_scores_codex":[0.9953356,0.0009566773,0.0005300486,0.000752874,0.002074538,0.0003502545],"domain_scores_gemma":[0.9471408,0.008753305,0.001019074,0.004139188,0.03633731,0.002610349],"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":[0.00002935057,0.00001405154,0.00004871341,0.00008985292,0.000005232162,0.00004329756,0.00002181852,0.00002104236,0.0003806577,0.000228067,0.9908437,0.008274316],"study_design_scores_gemma":[0.00004789184,0.00002524478,0.001226125,0.00009203194,0.00002097882,0.0001778541,0.00006475892,0.0001398746,0.0009942736,0.001520249,0.9956363,0.00005433397],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"editorial","genre_gemma":"commentary","genre_scores_codex":[0.001546882,0.007722016,0.0371949,0.193068,0.4698616,0.00226317,0.1407032,0.01753692,0.1301032],"genre_scores_gemma":[0.01173436,0.005180453,0.02659629,0.04464494,0.05032041,0.002322846,0.07989985,0.009061185,0.7702397],"genre_candidate":"commentary","genre_consensus":null,"teacher_disagreement_score":0.9927037,"threshold_uncertainty_score":0.5152997,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.05064091801667391,"score_gpt":0.3979727412155875,"score_spread":0.3473318231989135,"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."}}