S3methods-print: Print Methods for CCA, (s)PLS, PCA and Summary objects

In mixOmicsTeam/mixOmics: Omics Data Integration Project

Print Methods for CCA, (s)PLS, PCA and Summary objects

Description

Produce print methods for class "rcc", "pls", "spls", "pca", "rgcca", "sgcca" and "summary".

Usage

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

## S3 method for class 'perf.pls.mthd'
print(x, ...)

## S3 method for class 'perf.plsda.mthd'
print(x, ...)

## S3 method for class 'perf.splsda.mthd'
print(x, ...)

## S3 method for class 'perf.mint.splsda.mthd'
print(x, ...)

## S3 method for class 'perf.sgccda.mthd'
print(x, ...)

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

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

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

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

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

## S3 method for class 'tune.spls1'
print(x, ...)

## S3 method for class 'tune.mint.splsda'
print(x, ...)

## S3 method for class 'tune.block.splsda'
print(x, ...)

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

Arguments

x	object of class inherited from "rcc", "pls", "spls", "pca", "spca", "rgcca", "sgcca" or "summary".
...	not used currently.

Details

print method for "rcc", "pls", "spls" "pca", "rgcca", "sgcca" class, returns a description of the x object including: the function used, the regularization parameters (if x of class "rcc"), the (s)PLS algorithm used (if x of class "pls" or "spls"), the samples size, the number of variables selected on each of the sPLS components (if x of class "spls") and the available components of the object.

print method for "summary" class, gives the (s)PLS algorithm used (if x of class "pls" or "spls"), the number of variates considered, the canonical correlations (if x of class "rcc"), the number of variables selected on each of the sPLS components (if x of class "spls") and the available components for Communalities Analysis, Redundancy Analysis and Variable Importance in the Projection (VIP).

Value

none

Author(s)

Sébastien Déjean, Ignacio González, Kim-Anh Lê Cao, Fangzhou Yao, Jeff Coquery, Al J Abadi.

See Also

rcc, pls, spls, vip.

Examples

## print for objects of class 'rcc'
data(nutrimouse)
X <- nutrimouse$lipid
Y <- nutrimouse$gene
nutri.res <- rcc(X, Y, ncomp = 3, lambda1 = 0.064, lambda2 = 0.008)
print(nutri.res)

## Not run: 
## print for objects of class 'summary'
more <- summary(nutri.res, cutoff = 0.65)
print(more)

## print for objects of class 'pls'
data(linnerud)
X <- linnerud$exercise
Y <- linnerud$physiological
linn.pls <- pls(X, Y)
print(linn.pls)

## print for objects of class 'spls'
data(liver.toxicity)
X <- liver.toxicity$gene
Y <- liver.toxicity$clinic
toxicity.spls <- spls(X, Y, ncomp = 3, keepX = c(50, 50, 50),
keepY = c(10, 10, 10))
print(toxicity.spls)

## End(Not run)

mixOmicsTeam/mixOmics documentation built on Nov. 19, 2024, 11:53 a.m.