bubbles-methods: Compute the bubbles of a splicing graph

In SplicingGraphs: Create, manipulate, visualize splicing graphs, and assign RNA-seq reads to them

Description

bubbles computes the bubbles of the splicing graph of a given gene from a SplicingGraphs object.

Usage

bubbles(x)

ASCODE2DESC

Arguments

x	A SplicingGraphs object of length 1.

Details

TODO

Value

TODO

Author(s)

H. Pagès

See Also

This man page is part of the SplicingGraphs package. Please see ?`SplicingGraphs-package` for an overview of the package and for an index of its man pages.

Examples

example(SplicingGraphs)  # create SplicingGraphs object 'sg'
sg

## 'sg' has 1 element per gene and 'names(sg)' gives the gene ids.
names(sg)

plot(sgraph(sg["geneA"], tx_id.as.edge.label=TRUE))
bubbles(sg["geneA"])

plot(sgraph(sg["geneB"], tx_id.as.edge.label=TRUE))
bubbles(sg["geneB"])

plot(sgraph(sg["geneD"], tx_id.as.edge.label=TRUE))
bubbles(sg["geneD"])

SplicingGraphs documentation built on Nov. 8, 2020, 5:58 p.m.