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Table 1 Speed measurements for DGCA, Discordant, and EBcoexpress across in the simulation study

From: DGCA: A comprehensive R package for Differential Gene Correlation Analysis

Number of Simulated Samples DGCA Execution Time (s) DGCA (10 Perm.) Execution Time (s) Discordant Execution Time (s) EBcoexpress Execution Time (s)
10 2.4 +/- 0.2 18.2 +/- 0.2 259.1 +/- 33.1 2625.5 +/- 271.8
30 2.6 +/- 0.2 17.4 +/- 0.2 293.5 +/- 17.5 282.6 +/- 34
50 1.9 +/- 0.2 16 +/- 0.7 266.3 +/- 28.3 260.9 +/- 36.9
70 2 +/- 0.1 17.1 +/- 0.3 240.4 +/- 1.3 222.4 +/- 2
90 1.9 +/- 0.1 18.6 +/- 0.3 210.3 +/- 17.3 1983.9 +/- 126.2
100 2.1 +/- 0.2 15.9 +/- 0.7 246.8 +/- 34.5 2479.1 +/- 380.8
  1. The time (in seconds) for each analysis tool to take an input gene expression data with 600 genes and the given number of samples and output a table of differential correlation predictions for all 179,700 gene pairs. For DGCA, speed times both with and without 10 permutations (the default number of permutations in DGCA) are shown. These numbers were calculated from 5 runs of the simulation study, representing the arithmetic mean +/- the standard error of the mean across the simulations