{"id":"W6939691278","doi":"10.6084/m9.figshare.c.3630005","title":"The Listeria monocytogenes Core-Genome Sequence Typer (LmCGST): a bioinformatic pipeline for molecular characterization with next-generation sequence data","year":2015,"lang":"en","type":"other","venue":"Figshare","topic":"Mycorrhizal Fungi and Plant Interactions","field":"Agricultural and Biological Sciences","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"","keywords":"Listeria monocytogenes; Multilocus sequence typing; In silico; Phylogenetic tree; Typing; Sequence (biology); Sequence analysis; Listeria","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":[],"consensus_categories":[],"category_scores_codex":[0.003129925,0.002266861,0.001330864,0.002844229,0.0009068486,0.001810036,0.001921478,0.0008248853,0.007079656],"category_scores_gemma":[0.004012119,0.001471677,0.001909946,0.001557537,0.0004852023,0.001145612,0.001726162,0.001821596,0.005854324],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0009057429,"about_ca_system_score_gemma":0.002212127,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003053132,"about_ca_topic_score_gemma":0.002442644,"domain_scores_codex":[0.9986159,0.0002028396,0.0001295795,0.0005341072,0.0003849713,0.0001326475],"domain_scores_gemma":[0.9987422,0.0003753113,0.0002200851,0.0002077303,0.000309763,0.0001448888],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.003685901,0.0005880286,0.02920743,0.00268243,0.0009264497,0.0012954,0.001263671,0.02380778,0.3862219,0.006213344,0.1574913,0.3866163],"study_design_scores_gemma":[0.0007214292,0.0006214961,0.03085614,0.00041025,0.0004167654,0.001407374,0.0002752521,0.44456,0.3849586,0.01192758,0.1232687,0.0005764359],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"software","genre_scores_codex":[0.03456941,0.0005026325,0.7232365,0.0003942756,0.0001371446,0.0008962499,0.03816462,0.2000824,0.002016835],"genre_scores_gemma":[0.07164073,0.0002761307,0.853806,0.0003575331,0.00004953802,0.001191278,0.05676137,0.01374537,0.002172036],"genre_candidate":"software","genre_consensus":null,"teacher_disagreement_score":0.007079656,"threshold_uncertainty_score":0.02368385,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.2549114834437062,"score_gpt":0.2980420785955597,"score_spread":0.04313059515185347,"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."}}