Mouse hematopoietic stem cell differentiation
Mouse hematopoietic stem cell differentiation
| Rank | root mean squared error | local property | trustworthiness | co-KNN AUC | local continuity meta criterion | continuity | co-KNN size | density preservation | global property | Memory (GB) | Runtime (min) | CPU (%) | Name | Paper | Code | Year |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 7 | 10.88 | 0.26 | 0.64 | 0.59 | 0.05 | 0.78 | 0.06 | 0.56 | 0.73 | 1.20 | 0.39 | 65.70 | Principle Component Analysis (PCA) (logCPM, 1kHVG) | v1.1.2 | 1901 | |
| 6 | 12.10 | 0.21 | 0.70 | 0.57 | 0.10 | 0.77 | 0.11 | 0.09 | 0.63 | 1.20 | 2.63 | 43.80 | Uniform Manifold Approximation and Projection (UMAP), as implemented by scanpy (logCPM, 1kHVG) | v0.5.3 | 2018 | |
| 2 | 12.08 | 0.25 | 0.71 | 0.60 | 0.10 | 0.79 | 0.11 | 0.80 | 0.69 | 1.30 | 1.12 | 83.10 | densMAP PCA (logCPM, 1kHVG) | v0.5.3 | 2021 | |
| 9 | 512.48 | 0.14 | 0.73 | 0.53 | 0.03 | 0.60 | 0.05 | -0.39 | 0.59 | 1.30 | 1.75 | 321.90 | PHATE (default) | v1.0.8 | 2019 | |
| 1 | 13.42 | 0.28 | 0.66 | 0.62 | 0.07 | 0.82 | 0.09 | 0.83 | 0.74 | 1.30 | 2.80 | 40.30 | densMAP (logCPM, 1kHVG) | v0.5.3 | 2021 | |
| 5 | 16.56 | 0.21 | 0.67 | 0.57 | 0.08 | 0.77 | 0.09 | 0.01 | 0.65 | 1.20 | 4.32 | 319.30 | PHATE (logCPM, 1kHVG) | v1.0.8 | 2019 | |
| 8 | 512.53 | 0.15 | 0.74 | 0.53 | 0.03 | 0.62 | 0.05 | -0.20 | 0.60 | 1.30 | 5.82 | 457.60 | PHATE (gamma=0) | v1.0.8 | 2019 | |
| 4 | 30.31 | 0.20 | 0.75 | 0.57 | 0.12 | 0.77 | 0.14 | 0.32 | 0.63 | 1.20 | 6.20 | 213.40 | “t-Distributed Stochastic Neighbor Embedding (t-SNE) (logCPM, 1kHVG) | v0.1 | 2008 | |
| 3 | 15.66 | 0.28 | 0.64 | 0.62 | 0.05 | 0.84 | 0.07 | 0.65 | 0.74 | 1.20 | 10.52 | 518.20 | NeuralEE (CPU) (logCPM, 1kHVG) | v0.1.6 | 2020 | |
| 10 | 520,091.27 | 0.10 | 0.72 | 0.51 | 0.02 | 0.57 | 0.03 | 0.25 | 0.57 | 2.70 | 4.03 | 942.70 | NeuralEE (CPU) (Default) | v0.1.6 | 2020 |