| noM | noW | PADOG | noMnoW |
---|
p geomean | 0.0480 | 0.1330 |
0.0486
| 0.1225 |
p med | 0.092 | 0.1695 |
0.091
| 0.1595 |
% p.value<0.05 |
33.3
| 16.7 |
33.3
| 16.7 |
% q.value<0.05 |
8.3
| 0 | 4.2 | 0 |
rank mean | 20.52 | 22.33 |
18.95
| 22.48 |
rank med | 14.38 | 15.71 |
13.05
| 16.81 |
p Wilcox. | 0.0260 | 0.371 |
0.002
| reference |
p LME | 0.0463 | 0.314 |
0.0030
| reference |
coef. LME | -1.96 | -0.15 |
-3.53
| reference |
- The table shows statistics computed from nominal and adjusted p-values, and ranks of the 24 target pathways only, including geometric mean, median and percentages of pathways significant at 0.05 level based on nominal and adjusted p-values (q-values). The results of comparing the ranks of each method against noMnoW method, using a paired Wilcoxon test and a linear mixed-effects model, are included. The best value for each criterion is shown in bold. PADOG is compared against simpler approaches that i) use gene weights but regular rather than moderated t-scores (noM), ii) use moderated t-scores but no gene weights (noW) and iii) use neither moderated t-scores nor gene weights (noMnoW).