Build a probeAnno from ExpressionSet

Description

Build a probeAnno from ExpressionSet.

Usage

  probeAnnoFromESet(eSet, probeLength)

Arguments

Details

Creates a probeAnno object from ExpressionSet object. The function uses the PROBE_ID, CHROMOSOME and POSITION information store in the ExpressionSet object.

Value

An object of class probeAnno holding the mapping between probes and genomic positions.

Author(s)

Bettina Fischer

See Also

probeAnno-class

Examples

  dataPath <- system.file("data",package="SimBindProfiles")
  load(file.path(dataPath,"SGR.RData"))
  probeAnno <- probeAnnoFromESet(SGR, probeLength=50)

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
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Platform: x86_64-pc-linux-gnu (64-bit)

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> library(SimBindProfiles)
Loading required package: Ringo
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: RColorBrewer
Loading required package: limma

Attaching package: 'limma'

The following object is masked from 'package:BiocGenerics':

    plotMA

Loading required package: Matrix
Loading required package: grid
Loading required package: lattice
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/SimBindProfiles/probeAnnoFromESet.Rd_%03d_medium.png", width=480, height=480)
> ### Name: probeAnnoFromESet
> ### Title: Build a probeAnno from ExpressionSet
> ### Aliases: probeAnnoFromESet
> 
> ### ** Examples
> 
>   dataPath <- system.file("data",package="SimBindProfiles")
>   load(file.path(dataPath,"SGR.RData"))
>   probeAnno <- probeAnnoFromESet(SGR, probeLength=50)
Creating probeAnno mapping for chromosome X Done.
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>