/usr/lib/R/site-library/BoolNet/INDEX is in r-cran-boolnet 1.61-2.
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1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 | BoolNet-package Analyze Boolean networks
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
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
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
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.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
stateTransition Perform a transition to the next state
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
yeastTimeSeries Yeast cell cycle time series data
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