meffil.design.matrix: Infinium HumanMethylation450 BeadChip normalization design...

In perishky/meffil: Efficient algorithms for DNA methylation

Infinium HumanMethylation450 BeadChip normalization design matrix

Description

Design matrix derived by applying principal components analysis to control probes.

Usage

meffil.design.matrix(
  qc.objects,
  number.pcs,
  fixed.effects = NULL,
  random.effects = NULL
)

Arguments

qc.objects	A list of outputs from meffil.create.qc.object().
number.pcs	Number of principal components to include in the design matrix (Default: all).
fixed.effects	Names of columns in samplesheet that should be included as fixed effects along with control matrix principal components (Default: NULL).
random.effects	Names of columns in samplesheet that should be included as random effects (Default: NULL).

Value

Design matrix with one column for each of the first number.pcs prinicipal components.

perishky/meffil documentation built on March 20, 2024, 1:56 a.m.