Fig. 1

a Comparing the stability of scoring methods to changes in the number of samples and genes within transcriptomic data. For both Spearman’s correlation coefficients and concordance index, a higher value indicates better performance, with 0 and 0.5, respectively, indicating poor performance for each method. Similar results were observed when other signatures were used for scoring (Additional file 1: Figure S4 and S5); b Comparing the power of methods to distinguish groups with distinct biology; c Comparing the type 1 error for different methods when distinguishing groups with distinct biology; d Comparing the ability of methods to call true differential gene sets between two conditions