getStateSummary: Retrieve summary information on a state

In BoolNet: Construction, Simulation and Analysis of Boolean Networks

Retrieve summary information on a state

Description

Returns information on the supplied state, i.e. the successive state after a transition, the (synchronous) attractor to which the state leads, and the distance to this attractor.

Usage

getStateSummary(attractorInfo, state)

Arguments

attractorInfo	An object of class AttractorInfo, as returned by getAttractors, or of class SymbolicSimulation, as returned by simulateSymbolicModel. As the transition table information in this structure is required, getAttractors must be called in synchronous mode and with returnTable set to TRUE. Similarly, simulateSymbolicModel must be called with returnGraph=TRUE.
state	A 0-1 vector with n elements (where n is the number of genes in the underlying networks) describing the state.

Value

Returns a generic dataframe of the class TransitionTable. For n genes, the first n columns code for the original state (in this case, the state parameter), i.e. each column represents the value of one gene. The next n columns code for the successive state after a transition. The column attractorAssignment indicates the attractor to the state is assigned. If this information is available, the column stepsToAttractor indicates how many transitions are needed from the original state to the attractor. In this case, the table has only one row describing the supplied state. The TransitionTable class supports pretty printing using the print method.

See Also

getBasinOfAttraction, getTransitionTable, getAttractors, simulateSymbolicModel

Examples

## Not run: 
# load example data
data(cellcycle)

# get attractors
attractors <- getAttractors(cellcycle)

# print information for an arbitrary state
print(getStateSummary(attractors, c(1,1,1,1,1,1,1,1,1,1)))

## End(Not run)

BoolNet documentation built on Oct. 2, 2023, 5:08 p.m.