methVisual (version 1.24.0)

makeDataMethGFF: GFF methylation files

Description

Create methData object from processed .gff files

Usage

makeDataMethGFF(dir,chr,start,end,meth_value)

Arguments

dir

String; The local directory where the .gff files are located

chr

String; Chromosome under study

start

Integer; The start position of genomic region under study

end

Integer; The end position of the genomic region under study

meth_value

double; level of methylation on CpG

Value

methData object

Details

This function reads and processes GFF files and creates a list object (like the one generated by MethAlignNW()) which can be later analyzed through the visualization, classification and clustering functions.

Examples

methGFF <- makeDataMethGFF(dir=system.file(package="methVisual",
			"examples/GFF"),chr="7",start=0,end=70,0.75)
methGFF