REIDSFunction: "REIDSFunction"

In REIDS: Random Effects for the Identification of Differential Splicing

Description

The REIDSFunction performs the REIDS model on the output of the DataProcessing function and is a regular R function. It is advised to use this function in its cluster version and not on a regular laptop as it will consume time and memory.

Usage

REIDSFunction(geneData, nsim = 1000, geneID, exonID,
  informativeCalls = TRUE, alpha = 0.5)

Arguments

geneData	The data with as rows the probesets and as columns the samples. Note that the first column should contain the gene IDs and the second column the exon IDs
nsim	The number of iterations to perform.
geneID	A vector of the gene IDs.
exonID	A vector of the exon IDs
informativeCalls	Logical. Should the I/NI calls method be perform before applying the REIDS model?
alpha	The threshold for filtering in the I/NI calls method. Probesets with scores higher than alpha are kept.

Value

A list with an element for each gene with per gene the values returned by the iniREIDS and REIDS functions.

REIDS documentation built on May 2, 2019, 4:45 p.m.