asBED-GInteractions-method: Coerce to BED structure

In ComputationalRegulatoryGenomicsICL/GenomicInteractions: Utilities for handling genomic interaction data

Coerce to BED structure

Description

Coerce the structure of an object to one following BED-like conventions, i.e., with columns for blocks and thick regions.

Usage

## S4 method for signature 'GInteractions'
asBED(x, keep.mcols = FALSE, score = "score", ...)

Arguments

x	Generally, a tabular object to structure as BED
keep.mcols	logical whether to keep non-BED12 columns in final output (may cause problems with some parsers).
score	character, which field to export as 'score' in BED12. Defaults to 'auto' which will choose score, then counts, if present, or fill column with zeros.
...	Arguments to pass to methods, see asBED for details.

Value

A 'GRanges', with the metadata columns 'name', 'blockStarts' and 'blockSizes' added.

Examples

data(hic_example_data)
asBED(hic_example_data)

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