filter_dnam_by_quant_diff: Select regions with variations in DNA methylation levels...

In MethReg: Assessing the regulatory potential of DNA methylation regions or sites on gene transcription

Description

For each region, compares the mean DNA methylation (DNAm) levels in samples with high DNAm (Q4) vs. low DNAm (Q1) and requires the difference to be above a threshold.

Usage

filter_dnam_by_quant_diff(dnam, diff.mean.th = 0.2, cores = 1)

Arguments

dnam	DNA methylation matrix or SumarizedExperiment object
diff.mean.th	Threshold for difference in mean DNAm levels for samples in Q4 and Q1
cores	Number of CPU cores to be used in the analysis. Default: 1

Value

A subset of the original matrix only with the rows passing the filter threshold.

Examples

data("dna.met.chr21")
dna.met.chr21.filtered <- filter_dnam_by_quant_diff(
  dna.met.chr21
)

MethReg documentation built on Nov. 8, 2020, 8:01 p.m.