{"id":"W3187026124","doi":"10.1186/s12864-021-07845-2","title":"ARPEGGIO: Automated Reproducible Polyploid EpiGenetic GuIdance workflOw","year":2021,"lang":"en","type":"article","venue":"BMC Genomics","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":4,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Guelph","funders":"Core Research for Evolutional Science and Technology; Ministry of Education, Culture, Sports, Science and Technology; Japan Society for the Promotion of Science; Universität Zürich; Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung; National Science Foundation","keywords":"Biology; Workflow; Computational biology; Polyploid; Epigenetics; DNA methylation; Genome; DNA microarray; Epigenomics; Genomics; Genetics; Evolutionary biology; Computer science; Gene; Database","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":[0.003854094,0.004119887,0.001484512,0.002639782,0.001036318,0.003239138,0.004456553,0.0014785,0.01899977],"category_scores_gemma":[0.006538373,0.001755762,0.003542435,0.001330985,0.0009434957,0.002211119,0.003963949,0.002887883,0.01972526],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001729163,"about_ca_system_score_gemma":0.003281189,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.004897443,"about_ca_topic_score_gemma":0.003733607,"domain_scores_codex":[0.9974605,0.0002337795,0.0002576502,0.00108521,0.0006362124,0.0003265613],"domain_scores_gemma":[0.9969538,0.0009047899,0.0003079015,0.0008933861,0.0006450539,0.0002949282],"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":[0.005505791,0.0005643336,0.01180801,0.003527008,0.0009115429,0.002266338,0.001602855,0.04129243,0.1515391,0.01526054,0.3336141,0.432108],"study_design_scores_gemma":[0.00124478,0.0005261047,0.013844,0.0004672351,0.0002130788,0.001451133,0.0003701387,0.283809,0.2539349,0.03752013,0.4055044,0.001115047],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"software","genre_gemma":"software","genre_scores_codex":[0.007033452,0.0004134508,0.3478997,0.0002616927,0.0001334777,0.0006391544,0.02172877,0.6177871,0.00410312],"genre_scores_gemma":[0.06028035,0.0005316031,0.75041,0.000792367,0.0001074528,0.002689596,0.1158383,0.06373321,0.005617103],"genre_candidate":"software","genre_consensus":"software","teacher_disagreement_score":0.01899977,"threshold_uncertainty_score":0.06356061,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01861157893221042,"score_gpt":0.249674767191333,"score_spread":0.2310631882591225,"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."}}