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

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

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

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

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