DEXSeqResults object

Description

The DEXSeqResults object is a subclass of a DataFrame. It collects relevant information from a DEXSeqDataSet object with the results generated from testing for differences in exon usage.

Usage

  DEXSeqResults( object, independentFiltering=TRUE, filter)

Arguments

Value

A DEXSeqResults object.

Examples

  data(pasillaDEXSeqDataSet, package="pasilla")
  dxd <- estimateSizeFactors( dxd )
  dxd <- estimateDispersions( dxd )
  dxd <- testForDEU( dxd )
  dxr <- DEXSeqResults( dxd )

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
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> library(DEXSeq)
Loading required package: BiocParallel
Loading required package: Biobase
Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:parallel':

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

The following objects are masked from 'package:stats':

    IQR, mad, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, cbind, colnames, do.call, duplicated, eval, evalq,
    get, grep, grepl, intersect, is.unsorted, lapply, lengths, mapply,
    match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank,
    rbind, rownames, sapply, setdiff, sort, table, tapply, union,
    unique, unsplit

Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.

Loading required package: SummarizedExperiment
Loading required package: GenomicRanges
Loading required package: S4Vectors
Loading required package: stats4

Attaching package: 'S4Vectors'

The following objects are masked from 'package:base':

    colMeans, colSums, expand.grid, rowMeans, rowSums

Loading required package: IRanges
Loading required package: GenomeInfoDb
Loading required package: DESeq2
Loading required package: AnnotationDbi
Loading required package: RColorBrewer
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/DEXSeq/DEXSeqResults.Rd_%03d_medium.png", width=480, height=480)
> ### Name: DEXSeqResults-class
> ### Title: DEXSeqResults object
> ### Aliases: DEXSeqResults DEXSeqResults-class
> 
> ### ** Examples
> 
>   data(pasillaDEXSeqDataSet, package="pasilla")
>   dxd <- estimateSizeFactors( dxd )
>   dxd <- estimateDispersions( dxd )
using supplied model matrix
using supplied model matrix
>   dxd <- testForDEU( dxd )
using supplied model matrix
>   dxr <- DEXSeqResults( dxd )
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>