getVAF: Retrieve information abotut VAF

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

Description

Generic function to retrieve VAF found by omicsCompAnalysis on a caClass-class object.

Usage

getVAF(x, part=NULL, block=NULL)

Arguments

x	caClass-class object.
part	Character indicating whether "common" or "distinctive" VAF should be displayed
block	Character indicating the block of data for which the VAF will be given. 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

A list containing the requested information.

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)
getVAF(res)
getVAF(res, part="common")
getVAF(res, part="distinctive", block="expr")

llrs/STATegRa documentation built on May 29, 2019, 3:42 a.m.