DIABLO.cv: Cross validation

In RVAideMemoire: Testing and Plotting Procedures for Biostatistics

Cross validation

Description

Performs cross validation with DIABLO (block.plsda or block.splsda).

Usage

DIABLO.cv(x, method = c("mahalanobis.dist", "max.dist", "centroids.dist"),
  validation = c("Mfold", "loo"), k = 7, repet = 10, ...)

Arguments

x	an object of class "sgccda".
method	criterion used to predict class membership. See perf.
validation	a character giving the kind of (internal) validation to use. See perf.
k	an integer giving the number of folds (can be re-set internally if needed).
repet	an integer giving the number of times the whole procedure has to be repeated.
...	other arguments to pass to perf.

Details

The function uses the weighted predicted classification error rate (see perf).

Value

repet	number of times the whole procedure was repeated.
k	number of folds.
validation	kind of validation used.
ncomp	number of components used.
method	criterion used to classify individuals of the test sets.
NMC.mean	mean classification error rate (based on repet values).
NMC.se	standard error of the classification error rate (based on repet values).

Author(s)

Maxime HERVE <[e-mail]>

See Also

block.plsda, block.splsda, perf

Examples

## Not run: 
require(mixOmics)
data(nutrimouse)
data <- list(gene=nutrimouse$gene,lipid=nutrimouse$lipid,Y=nutrimouse$diet)
DIABLO <- block.plsda(X=data,indY=3)
DIABLO.cv(DIABLO)

## End(Not run)

RVAideMemoire documentation built on Nov. 6, 2023, 5:07 p.m.