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 | Extract a single Boolean network from a probabilistic Boolean network |
examplePBN | An artificial probabilistic Boolean network |
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 |
getTransitionProbabilities | Get a matrix of transitions and their probabilities in probabilistic Boolean networks |
getTransitionTable | Retrieve the transition table of a network |
loadBioTapestry | Import a network from BioTapestry |
loadNetwork | Load a Boolean network from a file |
markovSimulation | Identify important states in probabilistic Boolean networks |
perturbNetwork | Perturb a Boolean network randomly |
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 |
plotStateGraph | Visualize state transitions and attractor basins |
print.AttractorInfo | Print attractor cycles |
print.BooleanNetwork | Print a Boolean network |
print.BooleanNetworkCollection | Print a probabilistic Boolean network |
print.BooleanStateInfo | Print a transition table |
print.MarkovSimulation | Print the results of a Markov chain simulation |
print.ProbabilisticBooleanNetwork | Print a probabilistic Boolean network |
print.TransitionTable | Print a transition table |
reconstructNetwork | Reconstruct a Boolean network from time series of measurements |
simplifyNetwork | Simplify the functions of a synchronous, asynchronous, or probabilistic Boolean network |
stateTransition | Perform a transition to the next state |
testAttractorRobustness | Test properties of networks by comparing them to random networks |
testIndegree | Test properties of networks by comparing them to random networks |
testNetworkProperties | Test properties of networks by comparing them to random networks |
toPajek | Export a network to the Pajek file format |
yeastTimeSeries | Yeast cell cycle time series data |