Table 2 A comparison between the results of six methods: proposed, RaceID, SC3, Seurat, SINCERA, and SNN-Cliq.
From: Identification of cell types from single cell data using stable clustering
Dataset | #cell types | Proposed | RaceID | SC3 | SINCERA | SNN-Cliq | Seurat | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
K (mean ± sd) | AMI (mean ± sd) | K (mean ± sd) | AMI (mean ± sd) | K (mean ± sd) | AMI (mean ± sd) | K | AMI | K | AMI | K | AMI | ||
Biase | 3 | 3 ± 0 | 0.92 ± 0.02 | 3.14 ± 0.6 | 0.85 ± 0.23 | 3 ± 0 | 0.92 ± 0 | 6 | 0.64 | 6 | 0.62 | 4 | 0.74 |
Deng | 10 | 10 ± 0 | 0.73 ± 0.01 | 1 ± 0 | 0 ± 0 | 9 ± 0 | 0.81 ± 0.006 | 3 | 0.48 | 17 | 0.6 | 6 | 0.59 |
Goolam | 5 | 3 ± 0 | 0.73 ± 0.04 | 1 ± 0 | 0 ± 0 | 6 ± 0 | 0.69 ± 0 | 13 | 0.4 | 17 | 0.42 | 3 | 0.11 |
Klein | 4 | 6 ± 0 | 0.67 ± 0.06 | 2.98 ± 0.14 | 0.51 ± 0.05 | 19 ± 0 | 0.53 ± 0.006 | 43 | 0.52 | 265 | 0.21 | 3 | 0.06 |
Patel | 5 | 5 ± 0 | 0.86 ± 0.01 | 7.44 ± 1.88 | 0.66 ± 0.1 | 17 ± 0 | 0.93 ± 0 | 10 | 0.73 | 26 | 0.31 | 5 | 0.68 |
Pollen | 11 | 8 ± 0 | 0.72 ± 0.01 | 8.36 ± 2.27 | 0.68 ± 0 | 10 ± 0 | 0.53 ± 0.01 | 10 | 0.91 | 22 | 0.74 | 8 | 0.87 |
Treutlein | 5 | 3 ± 0 | 0.54 ± 0.03 | 1 ± 0 | 0 ± 0 | 3 ± 0 | 0.62 ± 0 | 7 | 0.46 | 5 | 0.51 | 1 | 0 |
Yan | 8 | 5 ± 0 | 0.78 ± 0.01 | 5.5 ± 2.34 | 0.61 ± 0.17 | 4 ± 0 | 0.72 ± 0 | 8 | 0.72 | 13 | 0.76 | 3 | 0.58 |
sim3 | 3 | 3 ± 0 | 1 ± 0 | 1 ± 0 | 0 ± 0 | 3 ± 0 | 1 ± 0 | 120 | 0.23 | 147 | 0.21 | 3 | 1 |
sim4 | 4 | 4 ± 0 | 0.99 ± 0.007 | 1 ± 0 | 0 ± 0 | 4 ± 0 | 0.99 ± 0.001 | 464 | 0.21 | 437 | 0.2 | 3 | 0.66 |
sim6 | 6 | 7.9 ± 0.3 | 0.64 ± 0.02 | 1 ± 0 | 0 ± 0 | 3 ± 0 | 0.51 ± 0.004 | 68 | 0.42 | 143 | 0.3 | 6 | 1 |
sim8 | 8 | 9.34 ± 0.47 | 0.85 ± 0.01 | 1 ± 0 | 0 ± 0 | 4 ± 0 | 0.56 ± 0.007 | 68 | 0.51 | 290 | 0.31 | 8 | 1 |
sim_Tung | 8 | 8 ± 0 | 0.51 ± 0.008 | 1 ± 0 | 0 ± 0 | 8 ± 0 | 0.006 ± 0 | 17 | 0.04 | 77 | 0.13 | 8 | 0 |
