GenomicOverlaps: Create a GenomicOverlaps object.

In ENCODExplorer: A compilation of ENCODE metadata

Description

Given a GRangesList object, determines which regions overlap with each others. The input regions are "flattened", and all overlapping regions (within and across the elements of the input grl parameter) are mapped to a new region whose start and end are the minimum start and maximum end of the initial overlapping regions.

Usage

GenomicOverlaps(grl, import_spec = list())

Arguments

grl	The GRangesList object whose elements need to be overlapped with each others.
import_spec	A list of columns which should be imported into the resulting object. Each element should be named after a column in mcols(grl), and should contain a function to be used to aggregate multiple values of that column.

Details

A matrix indicating which input regions fall within these new mapped regions is then produced.

Value

An object of class GenomicOverlaps.

ENCODExplorer documentation built on Nov. 8, 2020, 5:11 p.m.