ResulTable: ResulTable

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

ResulTable

Description

Extract a table of the top-ranked events from the output of EventPointer_Bootstraps.

Usage

ResulTable(EP_Result,coef = 1,number = Inf)

Arguments

EP_Result	The output of the function EventPointer_Bootstraps
coef	Number specifying which coefficient or contrast of the model is of interest.
number	Maximum number of events to list

Value

A dataframe with a row for the number of top events and the following columns:

deltaPSI: the difference of PSI between conditions

pvalue: raw p-value

lfdr: local false discovery rate

qvalue: adjusted p-value or q-value

Examples

     data(PSIss)
     PSI <- PSIss$PSI
     
     Dmatrix <- cbind(1,rep(c(0,1),each=2))
     Cmatrix <- matrix(c(0,1),nrow=2)
     
     Fit <- EventPointer_Bootstraps(PSI = PSI,
                                    Design = Dmatrix,
                                    Contrast = Cmatrix,
                                    cores = 1,
                                    ram = 1,
                                    nBootstraps = 10,
                                    UsePseudoAligBootstrap = TRUE)
     
     ResulTable(EP_Result = Fit,coef = 1,number = 5)

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