calculateInclusionLevels: Calculate inclusion levels using alternative splicing event...

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

Description

Calculate inclusion levels using alternative splicing event annotation and junction quantification for many samples

Usage

calculateInclusionLevels(
  eventType,
  junctionQuant,
  annotation,
  minReads = 10,
  onlyReturnASeventNames = FALSE
)

Arguments

eventType	Character: type of the alternative event to calculate
junctionQuant	Matrix: junction quantification with samples as columns and junctions as rows
annotation	Data.frame: alternative splicing annotation related to event type
minReads	Integer: minimum of total reads required to consider the quantification as valid

Value

Matrix with inclusion levels

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