{"id":"W4376132442","doi":"10.1093/nar/gkad407","title":"MicrobiomeAnalyst 2.0: comprehensive statistical, functional and integrative analysis of microbiome data","year":2023,"lang":"en","type":"article","venue":"Nucleic Acids Research","topic":"Metabolomics and Mass Spectrometry Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":584,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University","funders":"China Scholarship Council; Natural Sciences and Engineering Research Council of Canada; Canada Research Chairs; Genome Canada","keywords":"Profiling (computer programming); Microbiome; Visualization; Biology; Computational biology; Data science; Human Microbiome Project; Metabolomics; Computer science; Bioinformatics; Data mining; Human microbiome","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":[0.008484646,0.003592409,0.00261941,0.005617671,0.001143243,0.004229697,0.002590792,0.0009808881,0.01735616],"category_scores_gemma":[0.01275021,0.002938634,0.003212845,0.003511665,0.0009380088,0.003158031,0.005442173,0.003346078,0.01113235],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0007228071,"about_ca_system_score_gemma":0.004050056,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002184082,"about_ca_topic_score_gemma":0.003037912,"domain_scores_codex":[0.9967471,0.0007120091,0.0003273073,0.0008308966,0.001054998,0.0003275746],"domain_scores_gemma":[0.9943501,0.00304457,0.0006032392,0.0008268414,0.0007409384,0.0004342293],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"not_applicable","study_design_scores_codex":[0.004550163,0.0007086432,0.04038145,0.006743915,0.004666636,0.001403736,0.002796258,0.02126208,0.101207,0.01808934,0.4894687,0.3087221],"study_design_scores_gemma":[0.001304377,0.000722327,0.04960516,0.0009585875,0.001019441,0.00175089,0.0005575456,0.228944,0.1285301,0.05591221,0.5293541,0.00134115],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"software","genre_gemma":"software","genre_scores_codex":[0.01705846,0.001064462,0.4017283,0.0006566232,0.0003703519,0.0007093393,0.1077957,0.4669116,0.003705273],"genre_scores_gemma":[0.05962439,0.001162871,0.6910802,0.001021817,0.0002811643,0.003287425,0.1452549,0.09346725,0.004820118],"genre_candidate":"software","genre_consensus":"software","teacher_disagreement_score":0.01735616,"threshold_uncertainty_score":0.05806214,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.09904488799082163,"score_gpt":0.3842430342342067,"score_spread":0.2851981462433851,"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."}}