attractorsToLaTeX       Create LaTeX state table of attractors
binarizeTimeSeries      Binarize a set of real-valued time series
cellcycle               Mammalian cell cycle network
chooseNetwork           Extract a single Boolean network from a
                        probabilistic Boolean network
examplePBN              An artificial probabilistic Boolean network
fixGenes                Simulate knocked-out or over-expressed genes
generateCanalyzing      Generation functions for biologically relevant
                        function classes
generateRandomNKNetwork
                        Generate a random N-K Boolean network
generateState           Generate a state vector from single gene values
generateTimeSeries      Generate time series from a network
getAttractorSequence    Decode the state sequence of a synchronous
                        attractor
getAttractors           Identify attractors in a Boolean network
getBasinOfAttraction    Get states in basin of attraction
getPathToAttractor      Get state transitions between a state and its
                        attractor
getStateSummary         Retrieve summary information on a state
getTransitionProbabilities
                        Get a matrix of transitions and their
                        probabilities in probabilistic Boolean networks
getTransitionTable      Retrieve the transition table of a network
igf                     Boolean model of the IGF pathway
loadBioTapestry         Import a network from BioTapestry
loadNetwork             Load a Boolean network from a file
loadSBML                Load an SBML document
markovSimulation        Identify important states in probabilistic
                        Boolean networks
perturbNetwork          Perturb a Boolean network randomly
perturbTrajectories     Perturb the state trajectories and calculate
                        robustness measures
plotAttractors          Plot state tables or transition graphs of
                        attractors
plotNetworkWiring       Plot the wiring of a Boolean network
plotPBNTransitions      Visualize the transitions in a probabilistic
                        Boolean network
plotSequence            Plot a sequence of states
plotStateGraph          Visualize state transitions and attractor
                        basins
print.AttractorInfo     Print attractor cycles
print.BooleanNetwork    Print a Boolean network
print.MarkovSimulation
                        Print the results of a Markov chain simulation
print.ProbabilisticBooleanNetwork
                        Print a probabilistic Boolean network
print.SymbolicSimulation
                        Print simulation results
print.TransitionTable   Print a transition table
reconstructNetwork      Reconstruct a Boolean network from time series
                        of measurements
saveNetwork             Save a network
sequenceToLaTeX         Create LaTeX table of state sequences
simplifyNetwork         Simplify the functions of a synchronous,
                        asynchronous, or probabilistic Boolean network
simulateSymbolicModel   Simulate a symbolic Boolean network
stateTransition         Perform a transition to the next state
symbolicToTruthTable    Convert a symbolic network into a truth table
                        representation
testNetworkProperties   Test properties of networks by comparing them
                        to random networks
toPajek                 Export a network to the Pajek file format
toSBML                  Export a network to SBML
truthTableToSymbolic    Convert a network in truth table representation
                        into a symbolic representation
yeastTimeSeries         Yeast cell cycle time series data
