Reduced Neuroblastoma data set

Description

Neuroblastoma Data set - reduced in size to comply with BioC package guidelines

Usage

data(nbEset)

Details

This dataset was retrieved from GEO http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE3960 and consists of five reference samples, and ten primary neuroblastoma tumors. Four of the five reference samples GSM2827, GSM2842, GSM2883, and GSM2895 came from a separate dataset, http://www.ncbi.nlm.nih.gov/geo/gds/gds_browse.cgi?gds=181

Source

http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE3960

Examples

data(nbEset)
nbEset

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)

R is free software and comes with ABSOLUTELY NO WARRANTY.
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Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(PGSEA)
Loading required package: GO.db
Loading required package: AnnotationDbi
Loading required package: stats4
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: 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: IRanges
Loading required package: S4Vectors

Attaching package: 'S4Vectors'

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

    colMeans, colSums, expand.grid, rowMeans, rowSums


Loading required package: KEGG.db

KEGG.db contains mappings based on older data because the original
  resource was removed from the the public domain before the most
  recent update was produced. This package should now be considered
  deprecated and future versions of Bioconductor may not have it
  available.  Users who want more current data are encouraged to look
  at the KEGGREST or reactome.db packages

Loading required package: annaffy
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/PGSEA/nbEset.Rd_%03d_medium.png", width=480, height=480)
> ### Name: nbEset
> ### Title: Reduced Neuroblastoma data set
> ### Aliases: nbEset
> ### Keywords: datasets
> 
> ### ** Examples
> 
> data(nbEset)
> nbEset
ExpressionSet (storageMode: lockedEnvironment)
assayData: 8222 features, 15 samples 
  element names: exprs 
protocolData: none
phenoData
  sampleNames: GSM2827.CEL GSM2842.CEL ... GSM90391.CEL (15 total)
  varLabels: Case Age ... Tumor_p (9 total)
  varMetadata: labelDescription
featureData: none
experimentData: use 'experimentData(object)'
Annotation:  
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>