PLS analyses for genomics

Documentation for package ‘plsgenomics’ version 1.2-2

Colon	Gene expression data from Alon et al. (1999)
Ecoli	Ecoli gene expression and connectivity data from Kao et al. (2003)
gsim	GSIM for binary data
gsim.cv	Determination of the ridge regularization parameter and the bandwidth to be used for classification with GSIM for binary data
leukemia	Gene expression data from Golub et al. (1999)
mgsim	GSIM for categorical data
mgsim.cv	Determination of the ridge regularization parameter and the bandwidth to be used for classification with GSIM for categorical data
mrpls	Ridge Partial Least Square for categorical data
mrpls.cv	Determination of the ridge regularization parameter and the number of PLS components to be used for classification with RPLS for categorical data
pls.lda	Classification with PLS Dimension Reduction and Linear Discriminant Analysis
pls.lda.cv	Determination of the number of latent components to be used for classification with PLS and LDA
pls.regression	Multivariate Partial Least Squares Regression
pls.regression.cv	Determination of the number of latent components to be used in PLS regression
preprocess	preprocess for microarray data
rpls	Ridge Partial Least Square for binary data
rpls.cv	Determination of the ridge regularization parameter and the number of PLS components to be used for classification with RPLS for binary data
SRBCT	Gene expression data from Khan et al. (2001)
TFA.estimate	Prediction of Transcription Factor Activities using PLS
variable.selection	Variable selection using the PLS weights