{"id":"W3168899389","doi":"10.21203/rs.3.rs-596075/v1","title":"A Systematic Evaluation of Methods for Cell Phenotype Classification Using Single-Cell RNA Sequencing Data","year":2021,"lang":"en","type":"preprint","venue":"Research Square","topic":"Single-cell and spatial transcriptomics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":4,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Saskatchewan; University of Victoria","funders":"Western Canada Research Grid; Compute Canada","keywords":"Computer science; Annotation; Benchmark (surveying); Precision and recall; Artificial intelligence; Machine learning; Data mining","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":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.01046018,0.0002653168,0.0005258531,0.000195525,0.0001587539,0.0001536195,0.0009124257,0.000567047,0.0000182286],"category_scores_gemma":[0.002208333,0.0002690908,0.000208075,0.0002419322,0.0001057729,0.00001173321,0.0008402233,0.0004589598,0.000001153167],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003530534,"about_ca_system_score_gemma":0.002178523,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002175357,"about_ca_topic_score_gemma":0.00005726788,"domain_scores_codex":[0.99421,0.002784922,0.0007418355,0.001026127,0.0008108809,0.0004262321],"domain_scores_gemma":[0.9940415,0.0003057628,0.0004134524,0.002164802,0.002969853,0.0001046314],"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":[0.00006238449,0.0002260792,0.00003217093,0.03791054,0.00009362404,4.450709e-7,0.0002358115,0.00159107,0.958066,0.000007350814,0.00005229062,0.001722274],"study_design_scores_gemma":[0.0006500966,0.0002114075,0.0000162554,0.003460259,0.0003618032,0.000001692104,0.001509215,0.3493409,0.6439573,0.0001451268,0.0000731725,0.0002728103],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.6082317,0.01761848,0.3682793,0.00003177778,0.0005324932,0.004200713,0.0003368602,0.00001644541,0.0007521942],"genre_scores_gemma":[0.9101891,0.0002795988,0.08444005,0.000008830213,0.000275621,0.0001997683,0.004447315,0.00007375042,0.00008599986],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3477498,"threshold_uncertainty_score":0.9999762,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.4521501702349083,"score_gpt":0.4947490024885088,"score_spread":0.04259883225360056,"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."}}