{"id":"W3016108829","doi":"10.1101/2020.04.08.032540","title":"Complete and validated genomes from a metagenome","year":2020,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":15,"is_retracted":false,"has_abstract":true,"ca_institutions":"Western University","funders":"Suncor Energy Incorporated","keywords":"Metagenomics; Genome; Computational biology; Sequence assembly; Nanopore sequencing; Biology; Bacterial genome size; Genomics; Population; Pipeline (software); 1000 Genomes Project; Phylum; Illumina dye sequencing; Genetics; Computer science; Gene; 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":[0.002245902,0.0009646225,0.0008621234,0.00129884,0.0008260797,0.001200162,0.0007108885,0.0009672104,0.003399217],"category_scores_gemma":[0.003418153,0.0005367894,0.0009355975,0.00144513,0.0004369223,0.0006963199,0.001469542,0.0009327608,0.002363459],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004531148,"about_ca_system_score_gemma":0.001118724,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001128978,"about_ca_topic_score_gemma":0.00203767,"domain_scores_codex":[0.9980261,0.0002900077,0.0002103291,0.0006322588,0.0006282072,0.0002131228],"domain_scores_gemma":[0.9981021,0.0003808826,0.0002003217,0.0006071136,0.0005058451,0.0002037085],"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":[0.0005181993,0.0001309429,0.006097835,0.0003921039,0.00009404877,0.0002442223,0.0002422525,0.0008108803,0.9747329,0.0006026168,0.000973988,0.01516001],"study_design_scores_gemma":[0.0001283847,0.0006543077,0.0559346,0.0001937277,0.0002630223,0.001396187,0.0002829452,0.007630826,0.8673417,0.0009024014,0.0651788,0.00009310507],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"methods","genre_scores_codex":[0.8119237,0.001987976,0.08529384,0.0003061076,0.000247076,0.001015238,0.09112127,0.002821295,0.005283454],"genre_scores_gemma":[0.3756683,0.0008820782,0.3031097,0.0003513228,0.00005077132,0.0006378712,0.3136808,0.001450677,0.004168463],"genre_candidate":"methods","genre_consensus":null,"teacher_disagreement_score":0.003399217,"threshold_uncertainty_score":0.0118776,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02294142801899033,"score_gpt":0.2160374449646859,"score_spread":0.1930960169456956,"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."}}