getPreprocessing: Retrieve information about preprocessing

In lunacab/STATegRa: Classes and methods for multi-omics data integration

Description

Generic function to retrieve information about the preprocessing done by omicsCompAnalysis on a caClass-class object.

Usage

getPreprocessing(x, process=FALSE, preproData=FALSE, block=NULL)

Arguments

x	caClass-class object.
process	Logical indicating whether to return information about the processing done.
preproData	Logical indicating whether to return the pre-processed data matrices.
block	Character indicating the block of data to be returned. It can be specified by the position of the block ("1" or "2") or the name assigned in the caClass-class object. If it is NULL both blocks are displayed.

Value

If both process and preproData are specified, a list containing (otherwise the individual item):

process

Character indicating the processing done

preproData

Matrix (or list of matrices, depending on block) containing pre-processed data

Author(s)

Patricia Sebastian-Leon

See Also

omicsCompAnalysis, caClass-class

Examples

data("STATegRa_S3")
B1 <- createOmicsExpressionSet(Data=Block1.PCA, pData=ed.PCA,
                               pDataDescr=c("classname"))
B2 <- createOmicsExpressionSet(Data=Block2.PCA,
                               pData=ed.PCA, pDataDescr=c("classname"))
# Omics components analysis
res <- omicsCompAnalysis(Input=list(B1, B2), Names=c("expr", "mirna"),
                         method="DISCOSCA", Rcommon=2, Rspecific=c(2, 2),
                         center=TRUE, scale=TRUE, weight=TRUE)
getPreprocessing(res, process=TRUE)
getPreprocessing(res, preproData=TRUE, block="1")

lunacab/STATegRa documentation built on May 5, 2019, 2:42 a.m.