EventPointer_RNASeq: Statistical analysis of alternative splcing events for RNASeq...

In jpromeror/EventPointer: An effective identification of alternative splicing events using junction arrays and RNA-Seq data

Statistical analysis of alternative splcing events for RNASeq data

Description

Statistical analysis of all the alternative splicing events found in the given bam files.

Usage

EventPointer_RNASeq(Events, Design, Contrast, Statistic = "LogFC", PSI = FALSE)

Arguments

Events	Output from EventDetection function
Design	The design matrix for the experiment.
Contrast	The contrast matrix for the experiment.
Statistic	Statistical test to identify differential splicing events, must be one of : LogFC, Dif_LogFC and DRS.
PSI	Boolean variable to indicate if PSI should be calculated for every splicing event.

Value

Data.frame ordered by the splicing p.value . The object contains the different information for each splicing event such as Gene name, event type, genomic position, p.value, z.value and delta PSI.

Examples

   data(AllEvents_RNASeq)
   Dmatrix<-matrix(c(1,1,1,1,1,1,1,1,0,0,0,0,1,1,1,1),ncol=2,byrow=FALSE)
   Cmatrix<-t(t(c(0,1)))
   Events <- EventPointer_RNASeq(AllEvents_RNASeq,Dmatrix,Cmatrix,Statistic='LogFC',PSI=TRUE)

jpromeror/EventPointer documentation built on May 17, 2023, 10:29 p.m.