export.igraph: Export interactions to an igraph object.

In ComputationalRegulatoryGenomicsICL/GenomicInteractions-new: Utilities for handling genomic interaction data

Export interactions to an igraph object.

Description

Exports a GInteractions object to graph.data.frame for use by igraph package. This uses unique anchors as nodes and generates edges between them. For the resulting graph to be easily interpretable, anchors should be non-overlapping. This should already be the case for HiC data (either binned or restriction fragments), however ChIA-PET data can contain overlapping anchors, which may need to be reduced to non-overlapping regions before graph export.

Usage

export.igraph(GIObject)

## S4 method for signature 'GInteractions'
export.igraph(GIObject)

Arguments

GIObject

A GInteractions object.

Value

a graph.data.frame representation of the GInteractions object

Examples

data(hic_example_data)
ig <- export.igraph(hic_example_data)

ComputationalRegulatoryGenomicsICL/GenomicInteractions-new documentation built on April 10, 2022, 5:39 p.m.