Bagged.RDA.Feature.Selection: Description: BAGGED RDA feature selection

In microbiome/microbiomeold: Tools for microbiome analysis

Description

Arguments:

Usage

Bagged.RDA.Feature.Selection(X, Y, sig.thresh = 0.1, nboot = 1000,
  verbose = T)

Arguments

X	a matrix, samples on columns, variables (bacteria) on rows.
Y	vector with names(Y)=rownames(X), for example
sig.thresh	signal p-value threshold, default 0.1
nboot	Number of bootstrap iterations
verbose	verbose Returns:

Value

List with items: loadings: bagged loadings scores: bagged scores significance: significances of X variables group.centers: group centers on latent space bootstrapped: bootstrapped loadings data: data set with non-significant components dropped out.

Author(s)

Contact: Jarkko Salojarvi [e-mail]

References

See citation("microbiome")

Examples

#
#  library(microbiome)
#  data(peerj32)
#  x <- t(peerj32$microbes)
#  y <- factor(peerj32$meta$time); names(y) <- rownames(peerj32$meta)
# Bag.res <- Bagged.RDA.Feature.Selection(x, y, sig.thresh=0.05, nboot=100)
# PlotBaggedRDA(Bag.res, y)

microbiome/microbiomeold documentation built on May 22, 2019, 9:57 p.m.