mixglasso_ncomp_fixed: mixglasso_ncomp_fixed

In nethet: A bioconductor package for high-dimensional exploration of biological network heterogeneity

Description

mixglasso_ncomp_fixed

Usage

mixglasso_ncomp_fixed(x, n.comp, lambda = sqrt(2 * nrow(x) *
  log(ncol(x)))/2, pen = "glasso.parcor", init = "kmeans.hc",
  my.cl = NULL, modelname.hc = "VVV", nstart.kmeans = 1,
  iter.max.kmeans = 10, term = 10^{     -3 }, min.compsize = 5, ...)

Arguments

x	Input data matrix
n.comp	Number of mixture components
lambda	Regularization parameter. Default=sqrt(2*n*log(p))/2
pen	Determines form of penalty: glasso.parcor (default), glasso.invcov, glasso.invcor
init	Initialization. Method used for initialization init='cl.init','r.means','random','kmeans','kmeans.hc','hc'. Default='kmeans'
my.cl	Initial cluster assignments; need to be provided if init='cl.init' (otherwise this param is ignored). Default=NULL
modelname.hc	Model class used in hc. Default="VVV"
nstart.kmeans	Number of random starts in kmeans; default=1
iter.max.kmeans	Maximal number of iteration in kmeans; default=10
term	Termination criterion of EM algorithm. Default=10^-3
min.compsize	Stop EM if any(compsize)<min.compsize; Default=5
...	Other arguments. See mixglasso_init

Details

This function runs mixglasso

Value

see return mixglasso_init. list consisting of

mix.prob
Mu
Sig
SigInv
iter
loglik
bic	-loglik+log(n)*DF/2
mmdl	-loglik+penmmdl/2
u	responsibilities
comp	component assignments
compsize	size of components
pi.comps
warn	warnings during optimization

Author(s)

n.stadler

nethet documentation built on Nov. 8, 2020, 6:54 p.m.