parseSuppaEvent: Parses splicing events of a specific event type from SUPPA

In nuno-agostinho/psichomics: Graphical Interface for Alternative Splicing Quantification, Analysis and Visualisation

Parses splicing events of a specific event type from SUPPA

Description

Parses splicing events of a specific event type from SUPPA

Usage

parseSuppaEvent(event)

Arguments

event

Character vector: Splicing event attributes and junction positions

Details

More information about SUPPA available at https://bitbucket.org/regulatorygenomicsupf/suppa

The following event types are available to be parsed:

• SE (skipped exon)

• RI (retained intron)

• MX (mutually exclusive exons)

• A5 (alternative 5' splice site)

• A3 (alternative 3' splice site)

• AL (alternative last exon)

• AF (alternative first exon)

Value

List with the event attributes (chromosome, strand, event type and the position of the exon boundaries)

Note

It only allows to parse one event type at once.

Examples

event <- "ENSG00000000419;A3:20:49557492-49557642:49557470-49557642:-"
psichomics:::parseSuppaEvent(event)

nuno-agostinho/psichomics documentation built on Feb. 11, 2024, 11:16 p.m.