networkOptions {glmSparseNet}R Documentation

Setup network options

Description

Setup network options, such as using weighted or unweighted degree, which centrality measure to use

Usage

networkOptions(
  method = "pearson",
  unweighted = TRUE,
  cutoff = 0,
  centrality = "degree",
  min.degree = 0,
  n.cores = 1,
  trans.fun = function(x) {     x }
)

Arguments

method

in case of correlation and covariance, which method to use

unweighted

calculate degree using unweighted network

cutoff

cuttoff value in network edges to trim the network

centrality

centrality measure to use, currently only supports degree

min.degree

minimum value that individual penalty weight can take

n.cores

number of cores to use, default to 1

The trans.fun argument takes a function definition that will apply a transformation to the penalty vector calculated from the degree. This transformation allows to change how the penalty is applied.

trans.fun

see below

Value

a list of options

See Also

glmOrphan glmDegree

Examples

networkOptions(unweighted = FALSE)
[Package glmSparseNet version 1.8.1 Index]