cellFateMap: Get cell fate map of a network.

Description Usage Arguments Value See Also Examples

View source: R/BNP_PerState.R

Description

Runs all perturbations of time N for all states and all genes, returns a dataframe with initial states, final attractor, pertubed gene and value. See perturbState

Usage

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cellFateMap(net, states, genes, time = 1, label.rules, ...)

Arguments

net

BoolNet network to perturb

genes

genes to perturb, default is all genes.

time

time of perturbation, default is 1. If time=NULL the perturbation will be fixed permanently, if time=n the perturbation will last n time steps and then the rules will return to their original values.

label.rules

dataframe with labels (1st col) and rules (2nd col), if more than one rule is true all labels are appendedl the node names present in the rules must be in node.names

dataframe

of states state to perturb, default is all attractors.

values

value of perturbed genes, default is bitflip of target genes.

Value

dataframe with initial state, final attractor, pertubed gene and value. If label.rules is given it will label all states according to the rules.

See Also

perturbState

Examples

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data(cellcycle)
cellFateMap(cellcycle, time=NULL)
data(cellcycle)
cellFateMap(cellcycle, time=NULL)
      

mar-esther23/boolnet-perturb documentation built on Jan. 14, 2019, 7:49 p.m.