REIDS_IsoformAssesment: REIDS_IsoformAssesment

Description Usage Arguments Value

Description

The REIDS_IsoformAssesment is an experimental function to analyze the isoform information based on the exon level values and the isoform composition.

Usage

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REIDS_IsoformAssesment(geneIDs, IsoformInfo, ExonLevel, Groups, paired,
  Location = NULL, Name = "REIDSIsoforms")

Arguments

geneIDs

A vector with the geneIDs to analyze.

IsoformInfo

The path to the Composition file created by REIDS_JunctionAssesment or CreateOutput.

ExonLevel

The path to the ExonLevel.txt file

Groups

A list with elements speficifing the columns of the data in each group.

paired

Logical. Are the groups paired samples?

Location

A character string indication the place where the outputs are saved.

Name

A character string with the name of the ouput file. Defaults to "REIDSIsoforms".

Value

The function returns three files. The first file has name "Name_IsoformIndication.txt" and contains an assesment of the relative expression levels of the isoforms. A second file,"Name_ExonTesting.txt", shows information regarding the differential expression of exon. A final file,"Name_PossibelDEIsoforms" lists isoforms which might be differentially expressed between the groups.


REIDS documentation built on May 2, 2019, 6:42 a.m.