Cascade (version 1.8)

evolution: See the evolution of the network with change of cutoff

Description

See the evolution of the network with change of cutoff. This function may be usefull to see if the global topology is changed while increasing the cutoff.

Usage

evolution(net,list_nv,…)

Arguments

net

a network object

list_nv

a vector of cutoff at which the network should be shown

…

Optionnal arguments:

gr

a vector giving the group of each gene

color.vertex

a vector giving the color of each node

fix

logical, should the position of the node in the network be calculated once at the beginning ? Defaut to TRUE.

taille

vector giving the size of the plot. Default to c(2000,1000)

…

see plot function

Value

A HTML page with the evolution of the network.

References

Jung, N., Bertrand, F., Bahram, S., Vallat, L., and Maumy-Bertrand, M. (2014). Cascade: a R-package to study, predict and simulate the diffusion of a signal through a temporal gene network. Bioinformatics, btt705.

Vallat, L., Kemper, C. A., Jung, N., Maumy-Bertrand, M., Bertrand, F., Meyer, N., ... & Bahram, S. (2013). Reverse-engineering the genetic circuitry of a cancer cell with predicted intervention in chronic lymphocytic leukemia. Proceedings of the National Academy of Sciences, 110(2), 459-464.

Examples

# NOT RUN {
	data(network)
	sequence<-seq(0,0.2,length.out=20)
	#setwd("inst/animation")
	#evolution(network,sequence)
# }