annotateASevents: AS event annotation

In nachoryu/ASpediaFI: ASpedia-FI: Functional Interaction Analysis of Alternative Splicing Events

AS event annotation

Description

Detect and annotate AS events from GTF. This function borrows code from the IVAS package.

Usage

annotateASevents(object, gtf.file, num.cores = 1)

Arguments

object	Object of class ASpediaFI
gtf.file	an input GTF file
num.cores	the number of cores for parallel processing

Value

ASpediaFI object with a list of AS event annotations

References

Han, S. et al. (2017). Genome wide discovery of genetic variants affecting alternative splicing patterns in human using bioinformatics method. Genes & Genomics, 39.

Examples

fi <- new('ASpediaFI')
gtf <- system.file('extdata/GRCh38.subset.gtf', package = 'ASpediaFI')
fi <- annotateASevents(fi, gtf.file = gtf, num.cores = 1)
sapply(events(fi), length)
head(events(fi)$SE)

nachoryu/ASpediaFI documentation built on Aug. 19, 2022, 7:51 a.m.