Zebrafish (random split)

90k cells from zebrafish embryos throughout the first day of development, with and without a knockout of chordin, an important developmental gene. Split into train/test randomly. Dimensions: 26022 cells, 25258 genes. 24 cell types (avg. 1084±1156 cells per cell type).
Raw Scaled
RankNameMean scoreAccuracyAccuracyF1 scoreF1 scoreMacro F1 scoreMacro F1 scoreMemory (GB)Runtime (min)CPU (%)PaperYearLibrary
1Seurat reference mapping (SCTransform)0.800.850.840.850.830.730.72111.2014.60116.802021v4.3.0
2Logistic regression (log scran)0.790.850.830.850.830.720.715.0023.02188.202013v1.1.3
3Logistic regression (log CP10k)0.790.850.830.840.830.720.711.603.03409.202013v1.1.3
4Multilayer perceptron (log scran)0.790.850.830.840.830.710.705.0019.50621.501990v1.1.3
5Multilayer perceptron (log CP10k)0.780.840.820.840.820.710.701.6028.47792.401990v1.1.3
6XGBoost (log CP10k)0.740.800.790.800.780.680.671.903.751,678.702016v1.6.2
7K-neighbors classifier (log CP10k)0.730.810.800.810.790.630.622.101.77279.901967v1.1.3
8K-neighbors classifier (log scran)0.730.800.780.800.780.650.635.0011.05119.501967v1.1.3
9XGBoost (log scran)0.710.780.760.780.750.640.635.5017.65587.502016v1.6.2
10scANVI (Seurat v3 2000 HVG)0.670.800.780.760.730.510.487.40161.821,769.002021v0.20.0
11scANVI (All genes)0.630.770.750.720.690.470.455.1075.072,704.202021v0.20.0
12scArches+scANVI (All genes)0.460.640.600.550.500.320.296.2070.452,713.402021v0.20.0
13scArches+scANVI (Seurat v3 2000 HVG)0.450.640.610.540.490.280.257.2051.682,383.702021v0.20.0
14Majority Vote0.010.180.100.05-0.040.01-0.031.022.328.802022v0.7.0