Table 4.
Comparison of clustering results with the Reference Atlas annotations at developmental ontology Level 3
| Measures | Clustering | E11.5 | E13.5 | E15.5 | E18.5 | P4 | P14 | P28 | Average |
|---|---|---|---|---|---|---|---|---|---|
| |
k-means |
0.4173 |
0.3754 |
0.3882 |
0.3620 |
0.3633 |
0.3480 |
0.3455 |
0.3714 |
| NMI |
PCA2 |
0.2545 |
0.1508 |
0.1777 |
0.2344 |
0.2101 |
0.2631 |
0.2718 |
0.2232 |
| PCA10 |
0.3831 |
0.3305 |
0.3310 |
0.3045 |
0.3315 |
0.3094 |
0.3247 |
0.3307 |
|
| |
t-SNE2 |
0.5337 |
0.4947 |
0.5097 |
0.3977 |
0.3556 |
0.3481 |
0.3637 |
0.4290 |
| |
t-SNE10 |
0.5469 |
0.5202 |
0.5065 |
0.4382 |
0.4420 |
0.3484 |
0.3947 |
0.4567 |
| |
k-means |
0.5820 |
0.5751 |
0.5605 |
0.5815 |
0.5889 |
0.6838 |
0.5839 |
0.5937 |
| S-index |
PCA2 |
0.6524 |
0.6869 |
0.6206 |
0.6413 |
0.6399 |
0.6790 |
0.6283 |
0.6498 |
| PCA10 |
0.6065 |
0.6547 |
0.6270 |
0.6050 |
0.6278 |
0.6982 |
0.6113 |
0.6329 |
|
| |
t-SNE2 |
0.4729 |
0.5132 |
0.5387 |
0.5256 |
0.5889 |
0.6736 |
0.6383 |
0.5645 |
| |
t-SNE10 |
0.4724 |
0.4941 |
0.5736 |
0.5968 |
0.5566 |
0.6653 |
0.5673 |
0.5609 |
| |
k-means |
0.1756 |
0.1516 |
0.1341 |
0.1242 |
0.0609 |
0.0571 |
0.0634 |
0.1096 |
| ARI |
PCA2 |
0.0849 |
0.0235 |
0.0066 |
0.0327 |
0.0190 |
0.0386 |
0.0499 |
0.0364 |
| PCA10 |
0.1839 |
0.1175 |
0.0980 |
0.0700 |
0.0581 |
0.0388 |
0.0531 |
0.0885 |
|
| |
t-SNE2 |
0.2654 |
0.1967 |
0.1670 |
0.1021 |
0.0823 |
0.0779 |
0.0788 |
0.1386 |
| |
t-SNE10 |
0.2699 |
0.2123 |
0.1521 |
0.1195 |
0.0902 |
0.0847 |
0.0965 |
0.1464 |
| |
k-means |
0.3854 |
0.5233 |
0.6028 |
0.6135 |
0.6853 |
0.7253 |
0.7090 |
0.6064 |
| Purity |
PCA2 |
0.3127 |
0.3825 |
0.4584 |
0.5190 |
0.6056 |
0.6594 |
0.6473 |
0.5121 |
| PCA10 |
0.3918 |
0.4835 |
0.5596 |
0.5560 |
0.6708 |
0.6856 |
0.6892 |
0.5766 |
|
| |
t-SNE2 |
0.4774 |
0.5824 |
0.6772 |
0.6082 |
0.6795 |
0.7072 |
0.7121 |
0.6349 |
| t-SNE10 | 0.4895 | 0.6081 | 0.6473 | 0.6392 | 0.7305 | 0.7306 | 0.7342 | 0.6542 |
See the footnote of Table 3 for detailed explanations.