importRene {methimpute}R Documentation

Import a Rene methylation extractor file

Description

Import a Rene methylation extractor file into a GRanges-class object.

Usage

importRene(file, chrom.lengths = NULL, skip = 1)

Arguments

file

The file to import.

chrom.lengths

A data.frame with chromosome names in the first, and chromosome lengths in the second column. Only chromosomes named in here will be returned. Alternatively a tab-separated file with such a data.frame (with headers).

skip

The number of lines to skip. Usually 1 if the file contains a header and 0 otherwise.

Value

A methimputeData object.

Examples

## Get an example file in Rene format
file <- system.file("extdata","arabidopsis_rene.txt", package="methimpute")
data(arabidopsis_chromosomes)
rene.data <- methimpute:::importRene(file, chrom.lengths=arabidopsis_chromosomes)


[Package methimpute version 1.16.0 Index]