countsBetweenAnchors-methods: Summarise interactions between defined anchors

Description Usage Arguments Value

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

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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


Bioconductor-mirror/GenomicInteractions documentation built on June 23, 2017, 6:23 p.m.