svaBatchCor: Runs sva batch correction converts logFC to FC

In Morriseylab/ExpressExtras:

Runs sva batch correction converts logFC to FC

Description

Runs sva batch correction converts logFC to FC

Usage

svaBatchCor(dat, mmi, mm0, n.sv = NULL)

Arguments

dat	: matrix of cpms
mmi	: model matrix for fitting the data
mm0	: null model being compared when fitting the data
n.sv	: number of significant surrogate variables

Value

Matrix of batch corrected cpms

Examples

mod <- model.matrix(~as.factor(Disease), data=pData)
mod0 <- model.matrix(~1,data=pData)
n.sv = num.sv (data, mod,method = "leek")
cpms.corr <- svaBatchCor(cpms,mod,mod0,n.sv=n.sv)$corrected

Morriseylab/ExpressExtras documentation built on April 2, 2022, 9:36 a.m.