GenomicInteractions (version 1.6.2)

export.bed12: Export interactions in BED12 format.

Description

Export interactions in BED12 format.

Usage

export.bed12(GIObject, fn = NULL, score = "counts")
"export.bed12"(GIObject, fn = NULL, score = "counts")

Arguments

GIObject

A GInteractions object.

fn

A filename to write the object to

score

Which metadata column to export as score

Exports a GInteractions object to BED12 format, and writes to a specified file. If filename is not specified, then a data.frame containing the information is returned.

Bed12 files provide a method for visualising interactions, it is not a good format for storing all of the data associated with an interaction dataset, particularly for trans-chromosomal interactions, which can only be stored in the bed12 names field.

Value

invisible(1) if outputting to file or a data.frame containing all of the corresponding information

Examples

data(hic_example_data)
export.bed12(hic_example_data, fn = tempfile(), score = "counts")