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Table 3 Benchmarking the speed of Gel mathematics on massive graphs

From: Mango: combining and analyzing heterogeneous biological networks

Gel operation. Time (in seconds) Average
4 M+=8 K 0.92, 0.35, 0.27, 0.60, 0.56 0.54
8 K+=4 M 1.25, 1.15, 1.03, 1.02, 1.02 1.09
4 M−=8 K 0.52, 0.33, 0.62, 0.33, 0.25 0.41
8 K−=4 M 1.09, 1.28, 1.09, 1.16, 1.19 1.16
4 M.+=8 K 0.69, 0.60, 0.57, 0.31, 0.40 0.51
8 K.+=4 M 12.06, 12.09, 12.05, 12.23, 12.32 12.15
4 M.−=8 K 0.55, 0.41, 0.25, 0.26, 0.32 0.36
8 K.−=4 M 0.90, 0.85, 0.83, 0.98, 0.74 0.86
4 M=8 K 22.94, 23.74, 23.35, 22.98, 23.03 23.21
8 K=4 M 36.75, 35.33, 35.23, 35.38 35.67
copy=4 M 7.90, 7.76, 7.85, 7.73, 7.87 7.82
copy=8 K 0.30, 0.52, 0.45, 0.34, 0.29 0.38
  1. The 4 M link network is the gene correlation network generated by WGCNA. The 8 K link network is the combined KEGG pathway network. Benchmarks were performed consecutively on a 2010 Mac mini that has 8 Gb and runs 64-bit MacOS X 10.10 with a 2.4 GHz Intel Core 2 Duo processor. The time to copy the networks is also listed. All operations, including the copy operation, were performed using single thread in RAM