randomWalkByMatrixInv {netSmooth}R Documentation

Smooth data on graph by computing the closed-form steady state distribution of the random walk with restarts process.

Description

The closed-form solution is given by f_ss = (1 - alpha) * (I - alpha * A)^-1 * f_0 and is computed by matrix inversion in this function.

Usage

randomWalkByMatrixInv(f0, adjMatrix, alpha, normalizeAjdMatrix = c("rows",
  "columns"))

Arguments

f0

initial data matrix [NxM]

adjMatrix

adjacency matrix of graph to network smooth on will be column-normalized.

alpha

smoothing coefficient (1 - restart probability of random walk)

Value

network-smoothed gene expression


[Package netSmooth version 1.2.0 Index]