ComputePSI.ALE: Compute alternative last exon (ALE) percent spliced-in (PSI)...
In MARVEL: Revealing Splicing Dynamics at Single-Cell Resolution

View source: R/Script_PLATE_03_COMPUTE_PSI_6_Compute_ALE.R

ComputePSI.ALE

R Documentation

Compute alternative last exon (ALE) percent spliced-in (PSI) values

Description

Computes percent spliced-in (PSI) for alternative last exon (ALE) splicing events.

Usage

ComputePSI.ALE(MarvelObject, CoverageThreshold = 10)

Arguments

`MarvelObject`	Marvel object. S3 object generated from `DetectEvents` function.
`CoverageThreshold`	Numeric value. Coverage threshold below which the PSI of the splicing event will be censored, i.e. annotated as missing (NA). Coverage defined as the total number of reads supporting both included and excluded isoforms.

Value

An object of class S3 containing with new slots $SpliceFeatureValidated$ALE and $PSI$ALE.

Examples

marvel.demo <- readRDS(system.file("extdata/data", "marvel.demo.rds", package="MARVEL"))

marvel.demo <- ComputePSI.ALE(MarvelObject=marvel.demo,
                              CoverageThreshold=10
                              )

MARVEL documentation built on Oct. 31, 2022, 5:07 p.m.