subtractCoefs: Alternative interface to 'limma::removeBatchEffect()'

In DarwinAwardWinner/rctutils: Utility functions by Ryan C. Thompson

Alternative interface to limma::removeBatchEffect()

Description

Instead of accepting the batch effects and covariates separately, this function accepts a single design matrix, and an index of which columns of that design matrix represent batch effects.

Usage

subtractCoefs(x, design, coefsToSubtract, ...)

Arguments

x	This has the same meaning as in limma::removeBatchEffect().
design	The full design matrix, including both covariates (whose effects are to be kept) and batch effects (whose effects are to be subtracted out).
coefsToSubtract	An index vector indicating which columns of design should be subtracted out. This can be any vector such that design[,coefsToSubtract] selects the appropriate columns.
...	Additional arguments are passed to limma::removeBatchEffect().

Value

See limma::removeBatchEffect().

Examples

#TODO: Copy from removeBatchEffect

DarwinAwardWinner/rctutils documentation built on July 22, 2022, 5:19 a.m.