reorderBed: Reorder tabular methylation data to bed format

In andigoni/MeinteR: A framework to prioritize DNA methylation aberrations based on conformational and cis-regulatory element enrichment

Description

Reorders tabular methylation data to bed-formatted files. Compatible inputs are .txt, .csv data and other textual formats that contain the following mandatory columns: chr, start, end and score.

Usage

reorderBed(input.data, chr.col, start.col, end.col, score.col,
  strand.col = NULL)

Arguments

input.data	A data frame containing input bed-formatted data
chr.col	Column number containing the chromosome name
start.col	Column number containing the chromosome's start position
end.col	Column number containing the chromosome's end position
score.col	Column number containing the methylation score values either beta or delta-beta
strand.col	Column number containing the strand in the use data file ('+' strand is assumed if strand column is missing)

Value

A valid bed-formatted file (input of the 'MeinteR::find*' functions)

andigoni/MeinteR documentation built on Oct. 1, 2021, 9:33 p.m.