countsBetweenAnchors-methods: Summarise interactions between defined anchors

In ComputationalRegulatoryGenomicsICL/GenomicInteractions: Utilities for handling genomic interaction data

Summarise interactions between defined anchors

Description

Calculate the number of of paired-end reads mapping between a defined set of anchors. This function will ignore counts present in the input data.

Usage

countsBetweenAnchors(x, y, ...)

## S4 method for signature 'GInteractions,GRanges'
countsBetweenAnchors(x, y, ignore_overlaps = FALSE, ...)

Arguments

x	A GInteractions object
y	A GenomicRanges object
...	Extra parameters to pass to findOverlaps
ignore_overlaps	Allow overlapping anchors. Use this when you have overlapping anchors but be careful with multi-mapping. The 'within' option can help with this.

Value

A GInteractions object with annotated counts between anchors

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