{"id":"W2060492490","doi":"10.1371/journal.pone.0043992","title":"Frequency Matrix Approach Demonstrates High Sequence Quality in Avian BARCODEs and Highlights Cryptic Pseudogenes","year":2012,"lang":"en","type":"article","venue":"PLoS ONE","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":24,"is_retracted":false,"has_abstract":true,"ca_institutions":"Royal Ontario Museum","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Pseudogene; Computational biology; Sequence (biology); Biology; Genetics; Evolutionary biology; Genome; Gene","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":[0.002004483,0.0004668681,0.0004028831,0.002452095,0.0006817738,0.001142934,0.0003859267,0.000823407,0.001691387],"category_scores_gemma":[0.01003197,0.0002549046,0.0003097659,0.001531832,0.0008759993,0.0008766982,0.0007306631,0.000825289,0.0006248927],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0005269359,"about_ca_system_score_gemma":0.0003753846,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00233182,"about_ca_topic_score_gemma":0.005634816,"domain_scores_codex":[0.9973193,0.0006533611,0.0002208087,0.0006103653,0.001055343,0.0001408427],"domain_scores_gemma":[0.9894107,0.005549635,0.002205918,0.0008645101,0.001715883,0.000253241],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.001038542,0.0001442044,0.1302835,0.0007429463,0.0003886583,0.000554274,0.001348743,0.00603424,0.7219865,0.00405768,0.001000131,0.1324205],"study_design_scores_gemma":[0.00004797452,0.000947156,0.4806667,0.0001732375,0.0003203046,0.00618281,0.0008628215,0.09191311,0.3980797,0.00756158,0.01303689,0.0002076837],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.7680017,0.001097299,0.225581,0.0002074846,0.00005697786,0.00008291764,0.001047704,0.0008441016,0.003080892],"genre_scores_gemma":[0.8279594,0.000308907,0.1695184,0.0001166668,0.00002654187,0.00005528394,0.001092389,0.0001439171,0.000778441],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002452095,"threshold_uncertainty_score":0.01060086,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.05662280418129918,"score_gpt":0.267687946053343,"score_spread":0.2110651418720438,"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."}}