Generation, reconstruction, simulation and analysis of Boolean networks

Documentation for package ‘BoolNet’ version 1.3

BoolNet-package	Analyze Boolean networks
attractorsToLaTeX	Create LaTeX state table of attractors
binarizeTimeSeries	Binarize a set of real-valued time series
BoolNet	Analyze Boolean networks
cellcycle	Mammalian cell cycle network
chooseNetwork	Build a network from a collection of transition functions
fixGenes	Simulate knocked-out or over-expressed genes
generateRandomNKNetwork	Generate a random N-K Boolean network
getAttractors	Identify attractors in a Boolean network
getBasinOfAttraction	Get states in basin of attraction
getStateSummary	Retrieve summary information on a state
getTransitionTable	Retrieve the transition table of a network
loadNetwork	Load a Boolean network from a file
net	Mammalian cell cycle network
perturbNetwork	Perturb a Boolean network randomly
plotAttractors	Plot state table of attractors
plotNetworkWiring	Plot the wiring of a Boolean network
plotStateGraph	Visualize state transitions and attractor basins
print.AttractorInfo	Print attractor cycles
print.BooleanNetwork	Print a Boolean network
print.BooleanNetworkCollection	Print a collection of Boolean functions from a reconstruction algorithm
print.BooleanStateInfo	Print a transition table
print.TransitionTable	Print a transition table
reconstructNetwork	Reconstruct a Boolean network from time series of measurements
simplifyNetwork	Simplify the functions of a Boolean network
stateTransition	Performs a transition to the next state
toPajek	Export a network to the Pajek file format