set.options: Set and print options for network inference.

In tuxette/internet3D: gamma-package for internet3D

Description

Set and print options for network inference.

Usage

set.options(first.list = NULL, second.list = NULL, scale = TRUE,
  verbose = TRUE, mu = NULL, penalties = NULL, penalty.min = 0.01,
  penalty.max = NULL, n.penalties = 100, edges.max = Inf,
  symmetrization = c("AND", "OR"), initial.guess = NULL, max.it = NULL)

## S3 method for class 'internet3DOptions'
print(x, ...)

Arguments

first.list	list of edges supposed to be present (array with two columns and a number of rows corresponding to the number of edges with a prior)
second.list	list of edges supposed to be absent (array with two columns and a number of rows corresponding to the number of edges with a prior)
scale	logical. Should the data be scaled to unit variance prior the analysis
verbose	logical. Should messages be printed during the learning process
mu	positive number. Regularization parameter for the L2 penalty on edges with a prior assumption
penalties	a sequence of decreasing positive numbers to control the L1 regularization
penalty.min	if penalties=NULL, minimum value for the L1 regularization parameter
penalty.max	if penalties=NULL, maximum value for the L1 regularization parameter
n.penalties	if penalties=NULL, number of values to include in the sequence of positive numbers that control the L1 regularization
edges.max	maximum number of edges to stop the learning process
symmetrization	symmetrization rule, to be chosen between "AND" and "OR"
initial.guess	initial guess (if existing) for the solution of the optimization problem
max.it	maximum number of iterations allowed to solve the optimization problem
x	a internet3DOptions object
...	not used

Value

object of type internet3DOptions that can be used within the functions build.network or bootstrap.build

See Also

build.network, bootstrap.build

Examples

set.options()
set.options(mu = 1)

tuxette/internet3D documentation built on May 8, 2019, 11:59 p.m.