networkOptions: Setup network options
In sysbiomed/glmSparseNet: Network Centrality Metrics for Elastic-Net Regularized Models

networkOptions

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",
  minDegree = 0,
  nCores = 1,
  transFun = function(x) x,
  min.degree = deprecated(),
  n.cores = deprecated(),
  trans.fun = deprecated()
)

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.
`minDegree`	minimum value that individual penalty weight can take.
`nCores`	number of cores to use, default to 1.
`transFun`	See details below.
`min.degree`
`n.cores`
`trans.fun`	The `transFun` 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.