meffil.control.matrix: Infinium HumanMethylation450 BeadChip control matrix

In perishky/meffil: Efficient algorithms for DNA methylation

Infinium HumanMethylation450 BeadChip control matrix

Description

Matrix containing control probe intensities from the Infinium HumanMethylation450 BeadChip.

Usage

meffil.control.matrix(
  qc.objects,
  normalize = F,
  fixed.effects = NULL,
  random.effects = NULL
)

Arguments

qc.objects	A list of outputs from meffil.create.qc.object().
normalize	If TRUE, then control matrix is scaled and specified fixed and random effects removed from the matrix. Otherwise, the raw control matrix is returned. (Default: FALSE).
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

Matrix with one row per object consisting of control probe intensities and summaries.

perishky/meffil documentation built on June 9, 2024, 5:59 p.m.