{"id":"W2145636602","doi":"10.1093/bioinformatics/btq092","title":"High quality SNP calling using Illumina data at shallow coverage","year":2010,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":55,"is_retracted":false,"has_abstract":true,"ca_institutions":"BC Cancer Agency","funders":"","keywords":"Single-nucleotide polymorphism; SNP; Genome; Reference genome; Software; Computer science; Computational biology; Data mining; Genetics; Biology; Gene; Genotype","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":[0.001538961,0.0007609062,0.0009349679,0.0008988741,0.0005909666,0.001103276,0.001008478,0.0007793215,0.003966693],"category_scores_gemma":[0.004147177,0.0005169875,0.0006187429,0.001410442,0.0003440436,0.0006543167,0.001070494,0.001237746,0.003951241],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003245061,"about_ca_system_score_gemma":0.0007461261,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001468146,"about_ca_topic_score_gemma":0.003724613,"domain_scores_codex":[0.9980108,0.0004399953,0.000114414,0.0005996287,0.0007355912,0.00009954204],"domain_scores_gemma":[0.9980853,0.0007350492,0.0001662356,0.0004967694,0.0003922826,0.0001244088],"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":[0.0007074137,0.0001139402,0.01905711,0.0006641729,0.0003014045,0.0003821211,0.0005112987,0.01487387,0.689311,0.005112517,0.009657196,0.2593079],"study_design_scores_gemma":[0.000152557,0.0003962935,0.03402942,0.00009697453,0.0002069905,0.001649748,0.0001523246,0.2266302,0.6880868,0.01041473,0.03791163,0.0002723752],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"methods","genre_gemma":"empirical","genre_scores_codex":[0.07045021,0.000321876,0.9125956,0.0001663158,0.00006634824,0.0001605555,0.004398696,0.008641871,0.003198504],"genre_scores_gemma":[0.07089928,0.0001443553,0.9173196,0.0001755233,0.000034301,0.0002361595,0.007922213,0.0006494891,0.002619153],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.003966693,"threshold_uncertainty_score":0.0132699,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.05956912626817135,"score_gpt":0.3044715002253539,"score_spread":0.2449023739571825,"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."}}