Convert a PLMset to an ExpressionSet

Description

This function converts a PLMset to an ExpressionSet. This is often useful since many Bioconductor functions operate on ExpressionSet objects.

Usage

PLMset2exprSet(pset)
pset2eset(pset)

Arguments

Details

These functions convert PLMset objects to ExpressionSet objects. This is often useful since many Bioconductor functions operate on ExpressionSet objects. Note that the function pset2eset is a wrapper for PLMset2exprSet.

Value

returns a ExpressionSet

Author(s)

Ben Bolstad bmb@bmbolstad.com

See Also

ExpressionSet

Examples

if (require(affydata)) {
  data(Dilution)
  Pset <- fitPLM(Dilution)
  eset <- pset2eset(Pset)
}

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

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> library(affyPLM)
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

Loading required package: affy
Loading required package: Biobase
Welcome to Bioconductor

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

Loading required package: gcrma
Loading required package: preprocessCore
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/affyPLM/PLMset2exprSet.Rd_%03d_medium.png", width=480, height=480)
> ### Name: PLMset2exprSet
> ### Title: Convert a PLMset to an ExpressionSet
> ### Aliases: PLMset2exprSet pset2eset
> ### Keywords: manip
> 
> ### ** Examples
> 
> if (require(affydata)) {
+   data(Dilution)
+   Pset <- fitPLM(Dilution)
+   eset <- pset2eset(Pset)
+ }
Loading required package: affydata
     Package    LibPath                            Item      
[1,] "affydata" "/home/ddbj/local/lib64/R/library" "Dilution"
     Title                        
[1,] "AffyBatch instance Dilution"

Warning messages:
1: replacing previous import 'AnnotationDbi::tail' by 'utils::tail' when loading 'hgu95av2cdf' 
2: replacing previous import 'AnnotationDbi::head' by 'utils::head' when loading 'hgu95av2cdf' 
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>