5k Peripheral blood mononuclear cells

5k Peripheral Blood Mononuclear Cells (PBMCs) from a healthy donor. Sequenced on 10X v3 chemistry in July 2019 by 10X Genomics. 5247 cells x 20822 features with no cell type labels
Raw Scaled
RankNameMean scoreDistance correlation (spectral)Distance correlation (spectral)Distance correlationDistance correlationco-KNN AUCco-KNN AUCco-KNN sizeco-KNN sizecontinuitycontinuitydensity preservationdensity preservationglobal propertyglobal propertylocal continuity meta criterionlocal continuity meta criterionlocal propertylocal propertytrustworthinesstrustworthinessMemory (GB)Runtime (min)CPU (%)PaperYearLibrary
1densMAP PCA (logCP10k)0.550.151.250.670.760.690.370.050.050.860.720.690.700.780.560.040.050.400.400.820.630.592.15920.702021v0.5.3
2densMAP (logCP10k, 1kHVG)0.530.211.600.450.510.660.310.040.040.830.660.620.630.750.510.040.040.380.380.790.580.633.2797.002021v0.5.3
3UMAP PCA (logCP10k)0.490.151.280.670.760.690.380.050.040.850.690.100.130.790.580.040.040.380.380.820.640.593.77568.502018v0.5.3
4PyMDE Preserve Distances (logCP10k)0.480.000.540.901.010.720.430.030.020.840.670.500.510.830.660.020.020.360.360.780.5716.205.502,503.702021v0.1.18
5densMAP PCA (logCP10k, 1kHVG)0.480.171.370.410.470.640.270.040.040.830.650.520.540.730.460.040.040.370.370.790.590.591.88145.702021v0.5.3
6t-Distributed Stochastic Neighbor Embedding (t-SNE) (logCP10k)0.470.141.240.610.690.680.350.050.050.840.670.130.150.770.550.050.050.350.340.830.660.7722.23190.802008v0.1
7PyMDE Preserve Neighbors (logCP10k)0.460.171.370.490.560.650.300.050.040.860.720.100.130.740.480.040.040.380.380.820.630.982.751,307.502021v0.1.18
8NeuralEE (CPU) (logCP10k, 1kHVG)0.460.161.340.450.510.660.310.040.030.830.660.260.280.760.510.030.030.380.380.780.550.751.13766.902020v0.1.6
9densMAP (logCP10k)0.46-0.050.260.780.880.680.360.030.020.860.710.860.860.770.540.020.020.390.390.770.541.304.20249.902021v0.5.3
10PHATE (gamma=0)0.450.131.200.500.570.650.300.040.040.840.690.230.250.750.500.040.040.370.370.800.610.852.95538.302019v1.0.10
11PyMDE Preserve Neighbors (logCP10k, 1kHVG)0.450.181.440.450.510.660.310.040.040.830.660.040.070.760.520.040.040.370.370.780.550.971.27600.002021v0.1.18
12UMAP (logCP10k, 1kHVG)0.440.191.470.450.510.640.270.040.040.820.640.060.090.740.480.040.040.360.360.770.540.602.12111.802018v0.5.3
13t-Distributed Stochastic Neighbor Embedding (t-SNE) (logCP10k, 1kHVG)0.440.201.520.320.360.620.240.050.040.820.630.220.240.700.410.040.040.330.330.800.590.771.63788.902008v0.1
14PHATE (logCP10k, 1kHVG)0.430.151.280.490.560.650.300.040.030.810.610.080.110.750.510.030.030.370.370.770.550.794.02402.002019v1.0.10
15PHATE (logCP10k)0.430.101.050.510.580.630.250.050.040.840.680.240.260.720.430.040.040.360.360.810.620.812.23763.302019v1.0.10
16UMAP PCA (logCP10k, 1kHVG)0.430.191.480.390.440.630.250.040.040.820.640.030.050.720.440.040.040.350.350.780.570.562.15104.402018v0.5.3
17Principle Component Analysis (PCA) (logCP10k)0.42-0.070.160.880.990.690.380.030.020.820.630.470.490.800.600.020.020.360.360.780.550.551.33154.501901v1.1.3
18PHATE (default)0.410.070.900.530.600.630.250.040.040.820.640.190.210.720.440.040.040.360.360.800.610.857.77268.702019v1.0.10
19PyMDE Preserve Distances (logCP10k, 1kHVG)0.410.101.020.480.550.640.280.030.020.770.530.300.320.760.520.020.020.330.330.730.4716.2014.05233.902021v0.1.18
20Principle Component Analysis (PCA) (logCP10k, 1kHVG)0.390.080.930.470.540.630.270.030.020.800.590.200.230.740.490.020.020.340.340.730.450.471.2321.701901v1.1.3
21NeuralEE (CPU) (Default)0.380.060.840.630.710.660.320.030.020.740.47-0.05-0.020.750.510.020.020.360.360.790.592.709.38263.202020v0.1.6
22UMAP (logCP10k)0.37-0.070.170.770.870.670.340.030.030.870.730.010.040.780.570.030.030.370.370.770.541.303.00328.102018v0.5.3