sim.intervention: Simulate interventions in a Nested Effects Model

In nem: (Dynamic) Nested Effects Models and Deterministic Effects Propagation Networks to reconstruct phenotypic hierarchies

Description

Simulates a knock-down of a list of network nodes and returns the network nodes and effect reporters, where effects are expected.

Usage

sim.intervention(x, int, T=1)

Arguments

x	nem object
int	a character vector of nodes in the network
T	number of time steps to be simulated (only for dynoNEMs)

Value

list with two slots:

Sgenes.effected	effected network nodes (by intervention)
Egenes.effected	most likely effected downstream effect reporters (by intervention)
Egenes.effected.prob	probability of each reporter to be effected by the respective intervention experiment.

Author(s)

Holger Froehlich

Examples

   data("BoutrosRNAi2002")
   D <- BoutrosRNAiDiscrete[,9:16]
   res = nem(D, control=set.default.parameters(unique(colnames(D)), para=c(0.13,0.05))) 
   sim.intervention(res, "rel") # simulate knock-down of rel

nem documentation built on Oct. 31, 2019, 2:12 a.m.