{"id":"W6960310299","doi":"10.1371/journal.pone.0104579.g002","title":"Comparison of consensus sequences calculated from alignments of Illumina MiSeq short-read data to a nearly identical reference with four reference-guided assemblers.","year":2015,"lang":"en","type":"other","venue":"Figshare","topic":"Genetic diversity and population structure","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"","keywords":"Chromosome; Sequence (biology); Strain (injury); DNA sequencing; Reference genome","routes":{"ca_aff":false,"ca_fund":false,"ca_venue":false,"about_ca":true,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":["metaresearch"],"consensus_categories":[],"category_scores_codex":[0.001668473,0.001414876,0.001047777,0.003002994,0.001152764,0.00115713,0.001039509,0.000786741,0.01422215],"category_scores_gemma":[0.00529583,0.0005833191,0.00119291,0.002543171,0.0003044472,0.0007015116,0.0006490073,0.001325784,0.008718837],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0009756098,"about_ca_system_score_gemma":0.001424756,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003105136,"about_ca_topic_score_gemma":0.009354251,"domain_scores_codex":[0.9983183,0.0002356107,0.0002289492,0.0006254183,0.0004436914,0.0001480535],"domain_scores_gemma":[0.9979807,0.0003886025,0.000338098,0.0002210435,0.0008938216,0.0001777752],"domain_codex":null,"domain_gemma":"methods","domain_candidate":"methods","domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.003077786,0.000349641,0.008445035,0.003569721,0.0007518177,0.0009730626,0.001053431,0.003700747,0.8748717,0.002945313,0.03524604,0.06501555],"study_design_scores_gemma":[0.0003962768,0.00132865,0.1174124,0.0008462858,0.001160668,0.0022379,0.001351221,0.03901042,0.6243791,0.003209556,0.2083303,0.0003372398],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"other","genre_scores_codex":[0.4887132,0.005075908,0.2642338,0.0005195807,0.002302825,0.000987813,0.1955583,0.01288772,0.02972088],"genre_scores_gemma":[0.2816518,0.001430661,0.3881474,0.0006033652,0.00008871225,0.001115034,0.3083186,0.005540106,0.01310429],"genre_candidate":"other","genre_consensus":null,"teacher_disagreement_score":0.9983315,"threshold_uncertainty_score":0.0475778,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.3204461348897122,"score_gpt":0.3891658200037003,"score_spread":0.06871968511398807,"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."}}