export.bed12: Export interactions in BED12 format.

In ComputationalRegulatoryGenomicsICL/GenomicInteractions: Utilities for handling genomic interaction data

Export interactions in BED12 format.

Description

Export interactions in BED12 format.

Usage

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

## S4 method for signature 'GInteractions'
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')

ComputationalRegulatoryGenomicsICL/GenomicInteractions documentation built on April 16, 2022, 4:09 a.m.