parseMisoEvent: Parse an alternative splicing event from MISO

In psichomics: Graphical Interface for Alternative Splicing Quantification, Analysis and Visualisation

Description

Parse an alternative splicing event from MISO

Usage

parseMisoEvent(event)

Arguments

event

Data.frame containing only one event with at least 7 columns as retrieved from the alternative splicing annotation files from MISO (GFF3 files)

Details

More information about MISO available at http://miso.readthedocs.org

Value

List with event attributes and junction positions for the exons (depends on the events)

Examples

# example of alternative splicing event: skipped exon (SE)
event <- read.table(text = "
  chr1 SE gene 16854 18061 . - .
  chr1 SE mRNA 16854 18061 . - .
  chr1 SE exon 16854 17055 . - .
  chr1 SE exon 17233 17742 . - .
  chr1 SE exon 17915 18061 . - .
  chr1 SE mRNA 16854 18061 . - .
  chr1 SE exon 16854 17955 . - .
  chr1 SE exon 17915 18061 . - .")
psichomics:::parseMisoEvent(event)

psichomics documentation built on Nov. 8, 2020, 5:44 p.m.