Mouse hematopoietic stem cell differentiation

1.6k hematopoietic stem and progenitor cells from mouse bone marrow. Sequenced by Smart-seq2.

Mouse hematopoietic stem cell differentiation

Rankroot mean squared errorlocal propertytrustworthinessco-KNN AUClocal continuity meta criterioncontinuityco-KNN sizedensity preservationglobal propertyMemory (GB)Runtime (min)CPU (%)NamePaperCodeYear
710.880.260.640.590.050.780.060.560.731.200.3965.70Principle Component Analysis (PCA) (logCPM, 1kHVG)

v1.1.2

1901
612.100.210.700.570.100.770.110.090.631.202.6343.80Uniform Manifold Approximation and Projection (UMAP), as implemented by scanpy (logCPM, 1kHVG)

v0.5.3

2018
212.080.250.710.600.100.790.110.800.691.301.1283.10densMAP PCA (logCPM, 1kHVG)

v0.5.3

2021
9512.480.140.730.530.030.600.05-0.390.591.301.75321.90PHATE (default)

v1.0.8

2019
113.420.280.660.620.070.820.090.830.741.302.8040.30densMAP (logCPM, 1kHVG)

v0.5.3

2021
516.560.210.670.570.080.770.090.010.651.204.32319.30PHATE (logCPM, 1kHVG)

v1.0.8

2019
8512.530.150.740.530.030.620.05-0.200.601.305.82457.60PHATE (gamma=0)

v1.0.8

2019
430.310.200.750.570.120.770.140.320.631.206.20213.40“t-Distributed Stochastic Neighbor Embedding (t-SNE) (logCPM, 1kHVG)

v0.1

2008
315.660.280.640.620.050.840.070.650.741.2010.52518.20NeuralEE (CPU) (logCPM, 1kHVG)

v0.1.6

2020
10520,091.270.100.720.510.020.570.030.250.572.704.03942.70NeuralEE (CPU) (Default)

v0.1.6

2020