{"id":"W3134401478","doi":"10.1016/j.fawpar.2021.e00115","title":"CryptoGenotyper: A new bioinformatics tool for rapid Cryptosporidium identification","year":2021,"lang":"en","type":"article","venue":"Food and Waterborne Parasitology","topic":"Parasitic Infections and Diagnostics","field":"Immunology and Microbiology","cited_by":32,"is_retracted":false,"has_abstract":true,"ca_institutions":"Public Health Agency of Canada","funders":"Public Health Agency; Public Health Agency of Canada; University of Georgia","keywords":"Cryptosporidium; Sanger sequencing; Biology; Genotyping; Computational biology; Ribosomal RNA; Cryptosporidium parvum; UniProt; Identification (biology); Genetics; Sequence database; DNA sequencing; Gene; Genotype; Microbiology; Feces","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000132198,0.0001707672,0.0002919395,0.00007938944,0.0002523175,0.00003851915,0.00008577959,0.0003936797,0.0002325861],"category_scores_gemma":[0.0002079831,0.0001567652,0.00008690258,0.0001049488,0.0001156288,0.0000977997,0.00004603934,0.0001697066,0.0003555141],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001668666,"about_ca_system_score_gemma":0.0001388572,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001482939,"about_ca_topic_score_gemma":0.00001215078,"domain_scores_codex":[0.9988787,0.00006274196,0.0003933076,0.0002711083,0.00002230983,0.0003718661],"domain_scores_gemma":[0.9992305,0.0002297342,0.0001020994,0.0002591568,0.0001389468,0.00003954139],"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":[0.0007642565,0.0009631013,0.0625672,0.0004112738,0.001866407,0.00004180263,0.002860706,0.00007855603,0.5540972,0.1780121,0.1105198,0.0878176],"study_design_scores_gemma":[0.00403491,0.001043015,0.05056003,0.00002992122,0.0003053831,0.001020327,0.0002763628,0.00009115942,0.7031391,0.009231457,0.2296789,0.0005894009],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9537069,0.003551118,0.03821336,0.001129906,0.002048032,0.0003813823,0.0001322191,0.0001018713,0.0007352662],"genre_scores_gemma":[0.9947991,0.0002706867,0.002848697,0.0003823754,0.0001348123,0.00005524383,0.0005604984,0.00001604967,0.0009325069],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1687806,"threshold_uncertainty_score":0.6392699,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01362304156109643,"score_gpt":0.261674943550686,"score_spread":0.2480519019895896,"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."}}