{"id":"W6885478991","doi":"10.1371/journal.pntd.0012214.s001","title":"Validation of genetic classification of &lt;i&gt;Toxoplasma gondii&lt;/i&gt; genomes with FastQ Screen.","year":2025,"lang":"en","type":"article","venue":"Figshare","topic":"Toxoplasma gondii Research Studies","field":"Immunology and Microbiology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"","keywords":"Genome; Phylogenetic tree; Reference genome; Set (abstract data type); Genomics; 1000 Genomes Project; Type (biology)","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":[0.002924763,0.0008798229,0.0008040817,0.00138974,0.0009173917,0.001137668,0.0008124801,0.0008160069,0.003747256],"category_scores_gemma":[0.005367986,0.0003896722,0.001100292,0.001937887,0.000543636,0.0004821012,0.001137649,0.001071977,0.003603141],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0005327988,"about_ca_system_score_gemma":0.0008515425,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.004844706,"about_ca_topic_score_gemma":0.008630716,"domain_scores_codex":[0.9977155,0.0004162534,0.000268738,0.0006808153,0.0006288579,0.0002900244],"domain_scores_gemma":[0.9970489,0.0008340475,0.0003476055,0.0004787559,0.001106921,0.0001837288],"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":[0.0004273106,0.0002105321,0.007426031,0.0005544803,0.00009210675,0.0002602614,0.0005593431,0.0004682653,0.9734223,0.0005717446,0.00325635,0.01275125],"study_design_scores_gemma":[0.0001604968,0.001389698,0.1253864,0.0002282222,0.0004425305,0.00154361,0.001003675,0.007562595,0.7923126,0.0006177651,0.069242,0.0001104668],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.7735901,0.001547891,0.1006143,0.0009066208,0.0004296093,0.001651389,0.1040091,0.003435593,0.01381537],"genre_scores_gemma":[0.5755536,0.001225002,0.1985166,0.001416634,0.00004994914,0.002400635,0.2054452,0.002719666,0.01267271],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.004844706,"threshold_uncertainty_score":0.01546782,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02618613882083257,"score_gpt":0.2643612438833083,"score_spread":0.2381751050624757,"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."}}