categoriseInteractions: Categorize interaction types

In LTLA/fugi: Further Utilities for Genomic Interactions

Description

Get the numbers of interaction types existing in a GenomicInteractions object.

Usage

categoriseInteractions(GIObject, node.classes = NULL,
  viewpoints = NULL)

Arguments

GIObject	A GenomicInteractions object.
node.classes	Character vector specifying the node classes to include in the plot. Defaults to all node classes.
viewpoints	Character vector of acceptable node classes, where interactions are only considered if least one anchor is of an acceptable node class. Defaults to all classes in node.classes.

Value

A data.frame.

Examples

library("GenomicRanges")
data(hic_example_data)
hic_example_data <- updateObject(hic_example_data)

data(mm9_refseq_promoters)
mm9_refseq_grl = split(mm9_refseq_promoters, mm9_refseq_promoters$id)
annotateInteractions(hic_example_data, list(promoter=mm9_refseq_grl))
categoriseInteractions(hic_example_data)

LTLA/fugi documentation built on June 22, 2019, 8:50 p.m.