EventPointer {EventPointer} | R Documentation

## EventPointer

### Description

Statistical analysis of alternative splcing events

### Usage

    EventPointer(Design, Contrast, ExFit, Eventstxt, Filter = TRUE,
      Qn = 0.25, Statistic = "LogFC", PSI = FALSE)

### Arguments

`Design` | The design matrix for the experiment.
`Contrast` | The contrast matrix for the experiment.
`ExFit` | aroma.affymetrix pre-processed variable after using `extractDataFrame(affy, addNames=TRUE)`
`Eventstxt` | Path to the EventsFound.txt file generated by CDFfromGTF function.
`Filter` | Boolean variable to indicate if an expression filter is applied
`Qn` | Quantile used to filter the events (Bounded between 0-1, Q1 would be 0.25).
`Statistic` | Statistical test to identify differential splicing events, must be one of : LogFC, Dif_LogFC or DRS.
`PSI` | Boolean variable to indicate if Delta 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(ArraysData)

       Dmatrix<-matrix(c(1,1,1,1,0,0,1,1),nrow=4,ncol=2,byrow=FALSE)
       Cmatrix<-t(t(c(0,1)))
       EventsFound<-paste(system.file('extdata',package='EventPointer'),'/EventsFound.txt',sep='')

     Events<-EventPointer(Design=Dmatrix,
                          Contrast=Cmatrix,
                          ExFit=ArraysData,
                          Eventstxt=EventsFound,
                          Filter=TRUE,
                          Qn=0.25,
                          Statistic='LogFC',
                          PSI=TRUE)

[Package EventPointer version 2.0.1 Index]