{"id":"W2110597285","doi":"10.1111/1755-0998.12273","title":"Sim<scp>RAD</scp>: an R package for simulation‐based prediction of the number of loci expected in <scp>RAD</scp>seq and similar genotyping by sequencing approaches","year":2014,"lang":"en","type":"article","venue":"Molecular Ecology Resources","topic":"Genetic diversity and population structure","field":"Biochemistry, Genetics and Molecular Biology","cited_by":152,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"Natural Sciences and Engineering Research Council of Canada; European Commission","keywords":"Biology; Reference genome; In silico; Genome; Computational biology; Genome size; Restriction enzyme; Genotyping; DNA sequencing; Restriction site; Sequence assembly; Whole genome sequencing; Selection (genetic algorithm); Genetics; Computer science; DNA; Gene; Genotype; Transcriptome","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":[0.00554783,0.003729092,0.003239909,0.002288943,0.0009998078,0.002667443,0.005069872,0.001811232,0.0451347],"category_scores_gemma":[0.01525637,0.002566239,0.003799793,0.002059554,0.001127227,0.002170876,0.002698106,0.004305359,0.04237816],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0008589493,"about_ca_system_score_gemma":0.002666518,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.005067602,"about_ca_topic_score_gemma":0.005920213,"domain_scores_codex":[0.9979476,0.0008337149,0.0001560257,0.0004792988,0.0004178679,0.0001653958],"domain_scores_gemma":[0.9936616,0.004214909,0.0006244867,0.0008107716,0.0004779643,0.0002101632],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.001006615,0.0002100314,0.01637732,0.005248124,0.002958812,0.0008469631,0.0007156375,0.07931115,0.01632097,0.02308927,0.7577431,0.09617214],"study_design_scores_gemma":[0.0008040252,0.000271983,0.01030408,0.0006528312,0.000858272,0.001062048,0.0001571471,0.4064826,0.02755697,0.05229867,0.4989273,0.0006240008],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"software","genre_scores_codex":[0.006993999,0.000810346,0.5758149,0.0005147025,0.0003203687,0.0002824348,0.07504666,0.3345353,0.005681333],"genre_scores_gemma":[0.05288325,0.001177215,0.5906678,0.001250092,0.0001840605,0.002926025,0.1207156,0.2228625,0.007333393],"genre_candidate":"software","genre_consensus":null,"teacher_disagreement_score":0.0451347,"threshold_uncertainty_score":0.1509906,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01807334367068228,"score_gpt":0.227787178993115,"score_spread":0.2097138353224327,"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."}}