{"id":"W4403792959","doi":"10.1101/2024.10.25.620290","title":"NewtCap: an efficient target capture approach to boost genomic studies in Salamandridae (true salamanders and newts)","year":2024,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":10,"is_retracted":false,"has_abstract":true,"ca_institutions":"Department of Environment and Conservation","funders":"","keywords":"Salamandridae; Evolutionary biology; Biology; Caudata; Computer science; Zoology","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":[0.00168351,0.0008141219,0.001170884,0.001807192,0.0004562305,0.001176719,0.0014841,0.00166754,0.004215047],"category_scores_gemma":[0.002646134,0.000851493,0.001136469,0.0008920366,0.0006884011,0.001028092,0.002141947,0.001673359,0.001769237],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0006697841,"about_ca_system_score_gemma":0.0005078241,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001170329,"about_ca_topic_score_gemma":0.003786067,"domain_scores_codex":[0.9984149,0.0001872027,0.00009305857,0.000600465,0.0005516654,0.0001527587],"domain_scores_gemma":[0.9979345,0.0007553431,0.0003659599,0.0002797711,0.0003810259,0.0002834593],"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":[0.0003411256,0.0001140444,0.004935203,0.0003807716,0.0002403779,0.0001647013,0.00007970302,0.001455044,0.9617029,0.0002319288,0.001715474,0.0286385],"study_design_scores_gemma":[0.0002303236,0.00128146,0.04528889,0.0000725347,0.0003692328,0.003301717,0.0001895295,0.068025,0.8561787,0.0008127891,0.02402766,0.0002219951],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"methods","genre_scores_codex":[0.5191867,0.003860472,0.4489457,0.0009009617,0.0004647164,0.001206893,0.009780784,0.01200986,0.003643825],"genre_scores_gemma":[0.5375764,0.001298451,0.4372561,0.001640335,0.0002058242,0.001819087,0.01404788,0.001134799,0.005021119],"genre_candidate":"methods","genre_consensus":null,"teacher_disagreement_score":0.004215047,"threshold_uncertainty_score":0.01410079,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01730198931851191,"score_gpt":0.2379652439106999,"score_spread":0.220663254592188,"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."}}