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

View source: R/design-matrix.r

meffil.design.matrixR Documentation

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 June 9, 2024, 5:59 p.m.