EventPointer_RNASeq_TranRef: EventPointer_RNASeq_TranRef

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

EventPointer_RNASeq_TranRef

Description

Statistical analysis of alternative splicing events with the output of GetPSI_FromTranRef

Usage

EventPointer_RNASeq_TranRef(
  Count_Matrix,
  Statistic = "LogFC",
  Design,
  Contrast
)

Arguments

Count_Matrix	The list containing the expression data taken from the ouput of GetPSI_FromTranRef
Statistic	The type of statistic to apply. Default = 'LogFC' (can be 'logFC, 'Dif_LogFC','DRS')
Design	The design matrix of the experiment.
Contrast	The Contrast matrix of the experiment.

Value

a data.frame with the information of the names of the event, its p.values and the corresponding z.value. If there is more than one contrast, the function returns as many data.frames as number of contrast and all these data.frame are sotred in an unique list.

Examples

## Not run: 
   data(EventXtrans)
   data(PSIss)
   # Design and contrast matrix:

   Design <- matrix(c(1,1,1,1,0,0,1,1),nrow=4)
   Contrast <- matrix(c(0,1),nrow=2)

   # Statistical analysis:


   Fit <- EventPointer_RNASeq_TranRef(Count_Matrix =  PSIss$ExpEvs,
                                      Statistic = 'LogFC',Design = Design,
                                      Contrast = Contrast)

## End(Not run)

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