Fig. 4

Runtime. Shown are the distributions of the elapsed processing times (y-axis, log-scale) when applying the enrichment methods indicated on the bottom x-axis to the 27 datasets of the GEO2KEGG benchmark set. The x-axis on top of the plot indicates the number of permutations that have been used to estimate gene set significance. Elapsed runtime of NEA when using 100 and 1000 permutations, respectively, are shown in Additional file 1: Figure S2