export.igraph

export.igraph,GInteractions-method

GIObject


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.


R package for handling Genomic interaction data, such as
ChIA-PET/Hi-C, annotating genomic features with interaction
information and producing various plots / statistics.

Malcolm Perry

GenomicInteractions

R package for handling genomic interaction data

export.igraph function

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.

export.igraph: Export interactions to an igraph object.

Description

Usage

Arguments

Value

Examples