Skip to main content

Table 3 Performance evaluation

From: CABeRNET: a Cytoscape app for augmented Boolean models of gene regulatory NETworks

 

Ordered networks (K=2,b=0.3)

Critical networks (K=2,b=0.5)

Chaotic networks (K=3,b=0.3)

Nodes

100

500

1000

5000

100

500

1000

5000

100

500

1000

5000

Avg. (sec)

10.20

53.66

101.82

603.56

9.61

52.53

109.65

746.80

13.62

73.22

150

1341.94

St. Dev. (sec)

1.07

1.76

2.45

29.40

0.40

1.74

3.82

203.43

0.48

2.18

6.91

39.58

  1. The average computation time and standard deviation of 1000 steps of the dynamics is reported for different classes and sizes of NRBNs with random topology. Three classes are considered: i) ordered (i.e., average connectivity K=2, Boolean function bias b=0.3), i i) critical (i.e., K=2, b=0.5) and chaotic (i.e., K=3, b=0.5). Four different sizes are simulated: N=100,500,1000,5000. For each class and size, 10 different randomly generated networks are simulated starting form 1000 different initial conditions. The average computation time of the 10 (nets) X 1000 (initial conditions) is considered. Simulations were performed on a MacBook Pro with a 2.7 GHz dual-core Intel Core i7 processor with 4 MB shared L3 cache and 8 GB of RAM
Back to article page

BMC Bioinformatics

ISSN: 1471-2105

Contact us