CeNGEN (random split)

100k FACS-isolated C. elegans neurons from 17 experiments sequenced on 10x Genomics. Split into train/test randomly. Dimensions: 100955 cells, 22469 genes. 169 cell types avg. 597±800 cells per cell type).
Raw Scaled
RankNameMean scoreAccuracyAccuracyF1 scoreF1 scoreMacro F1 scoreMacro F1 scoreMemory (GB)Runtime (min)CPU (%)PaperYearLibrary
1Logistic regression (log CP10k)0.860.890.890.890.890.810.811.9017.051,695.902013v1.1.3
2Multilayer perceptron (log scran)0.850.880.870.880.870.790.796.8041.051,629.701990v1.1.3
3XGBoost (log CP10k)0.830.850.840.850.850.790.792.0013.031,952.802016v1.6.2
4Multilayer perceptron (log CP10k)0.830.860.860.860.850.770.771.708.655,600.101990v1.1.3
5K-neighbors classifier (log CP10k)0.830.850.850.860.860.770.772.805.10426.101967v1.1.3
6Logistic regression (log scran)0.810.830.820.840.840.780.786.8058.55565.702013v1.1.3
7K-neighbors classifier (log scran)0.810.840.840.840.840.750.756.8039.20104.701967v1.1.3
8Seurat reference mapping (SCTransform)0.800.830.830.830.830.750.74902.0034.05124.302021v4.3.0
9XGBoost (log scran)0.800.820.820.830.820.760.766.8045.57785.402016v1.6.2
10scANVI (All genes)0.490.670.660.580.570.240.2410.00131.902,577.302021v0.20.0
11scANVI (Seurat v3 2000 HVG)0.450.620.620.530.530.210.219.40177.031,926.202021v0.20.0
12scArches+scANVI (All genes)0.250.420.410.290.280.080.0713.10137.822,733.402021v0.20.0
13scArches+scANVI (Seurat v3 2000 HVG)0.230.380.370.270.260.070.0611.0098.172,411.102021v0.20.0
14Majority Vote0.010.050.040.01-0.010.00-0.010.231.1015.202022v0.7.0