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Table 4 Software Comparison

From: ADAM: Analysis of Discrete Models of Biological Systems Using Computer Algebra

  Steady State
Analysis
Limit Cycle
Analysis
Input
Format
System
Requirements
ADAM Yes Yes Boolean (or polynomial) functions Logical Models (GINsim) None, web based
GINsim Yes For small models Parameters (non-zero truth tables) Logical Model Java virtual machine
BoolNet R package For small models For small models Boolean functions R statistics software
DDLab For small models For small models Logical tables
BN/PBN Matlab Toolbox For small models For small models Logical tables Matlab
  1. Comparison of different software tools regarding attractor analysis: ‡ less than 1 second on published gene regulatory networks with up to 72 variables; only for short limit cycles; † heuristic methods are available for larger networks; installation necessary, available for common operating systems.