Table 1 

Comparison of network analysis tools. 

Tool 
FUGA 
BIT 
BGL 
BCT 
NATbox 
igraph 
NeAT 
NWB 
IN 
GG 


Interface 
MATLAB 
MATLAB 
MATLAB 
MATLAB 
R 
C/R/Python 
Webbased 
Java 
Java 
Java 


Userdefined networks 
✓ 
✓ 
✓ 
✓ 
✓ 
✓ 
✓ 
✓ 
✓ 
✓ 


Curated pathway/network content: API 
✓ 
✓ 
✓ 
✓ 



Computational network reconstruction 
✓ 
✓ 
✓ 
✓ 



Statistical network analysis 
✓ 
✓ 
✓ 
✓ 
✓ 
✓ 
✓ 
✓ 
✓ 
✓ 


Biological enrichment/annotation 
✓ 
✓ 
✓ 
✓ 
✓ 



Expression analysis 
✓ 
✓ 
✓ 
✓ 



BIT = MATLAB Bioinformatics Toolbox, BGL = MATLABBGL, BCT = Brain Connectivity Toolbox, NWB = Network Workbench, IN = Ingenuity Pathways Analysis, GG = GeneGo. 

Drozdov et al. BMC Research Notes 2011 4:462 doi:10.1186/175605004462 