simulateEigengeneNetwork: Simulate eigengene network from a causal model

View source: R/Functions.R

simulateEigengeneNetworkR Documentation

Simulate eigengene network from a causal model

Description

Simulates a set of eigengenes (vectors) from a given set of causal anchors and a causal matrix.

Usage

simulateEigengeneNetwork(
  causeMat, 
  anchorIndex, anchorVectors, 
  noise = 1, 
  verbose = 0, indent = 0)

Arguments

causeMat

causal matrix. The entry [i,j] is the influence (path coefficient) of vector j on vector i.

anchorIndex

specifies the indices of the anchor vectors.

anchorVectors

a matrix giving the actual anchor vectors as columns. Their number must equal the length of anchorIndex.

noise

standard deviation of the noise added to each simulated vector.

verbose

level of verbosity. 0 means silent.

indent

indentation for diagnostic messages. Zero means no indentation; each unit adds two spaces.

Details

The algorithm starts with the anchor vectors and iteratively generates the rest from the path coefficients given in the matrix causeMat.

Value

A list with the following components:

eigengenes

generated eigengenes.

causeMat

a copy of the input causal matrix

levels

useful for debugging. A vector with one entry for each eigengene giving the number of generations of parents of the eigengene. Anchors have level 0, their direct causal children have level 1 etc.

anchorIndex

a copy of the input anchorIndex.

Author(s)

Peter Langfelder


WGCNA documentation built on Sept. 18, 2024, 5:08 p.m.