sracipePlotParamBifur: Parameter bifurcation plots

In lusystemsbio/sRACIPE: Systems biology tool to simulate gene regulatory circuits

Parameter bifurcation plots

Description

Plot the expression of the genes against parameter values to understand the effect of parameters on the gene expressions.

Usage

sracipePlotParamBifur(
  .object,
  paramName,
  data = NULL,
  paramValue = NULL,
  assignedClusters = NULL,
  plotToFile = FALSE
)

## S4 method for signature 'RacipeSE'
sracipePlotParamBifur(
  .object,
  paramName,
  data = NULL,
  paramValue = NULL,
  assignedClusters = NULL,
  plotToFile = FALSE
)

Arguments

.object	RacipeSE object generated by sracipeSimulate function.
paramName	character. The name of the parameter to be plotted.
data	(optional) dataframe. Default rSet geneExpression. The data to be plotted. For example, use rSet$stochasticSimulations$[noise] to plot the stochastic data.
paramValue	(optional) Dataframe. The parameter values if rSet$params is not to be used.
assignedClusters	(optional) Dataframe. The cluster assignment of data.
plotToFile	(optional) logical. Default FALSE. Whether to save plots to a file.

Value

none

Examples

data("demoCircuit")
## Not run: 
rSet <- sRACIPE::sracipeSimulate(circuit = demoCircuit, numModels = 100,
plots=FALSE, plotToFile = FALSE)
rSet <- sRACIPE::sracipeNormalize(rSet)
sracipePlotParamBifur(rSet, "G_A")

## End(Not run)

lusystemsbio/sRACIPE documentation built on Nov. 19, 2024, 9:07 a.m.