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

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

Select regions with variations in DNA methylation levels above a threshold

Description

For each region, computes the interquartile range (IQR) of the DNA methylation (DNAm) levels and requires the IQR to be above a threshold

Usage

filter_dnam_by_quant_diff(dnam, min.IQR.threshold = 0.2, cores = 1)

Arguments

dnam	DNA methylation matrix or SummarizedExperiment object
min.IQR.threshold	Threshold for minimal interquantile range (difference between the 75th and 25th percentiles) of the DNAm
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
)

TransBioInfoLab/MethReg documentation built on July 28, 2023, 9:17 p.m.