The Organism information for m10kcod

Description

m10kcodORGANISM is an R object that contains a single item: a character string that names the organism for which m10kcod was built. m10kcodORGPKG is an R object that contains a chararcter vector with the name of the organism package that a chip package depends on for its gene-centric annotation.

Details

Although the package name is suggestive of the organism for which it was built, m10kcodORGANISM provides a simple way to programmatically extract the organism name. m10kcodORGPKG provides a simple way to programmatically extract the name of the parent organism package. The parent organism package is a strict dependency for chip packages as this is where the gene cetric information is ultimately extracted from. The full package name will always be this string plus the extension ".db". But most programatic acces will not require this extension, so its more convenient to leave it out.

Examples

  m10kcodORGANISM
  m10kcodORGPKG

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
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> library(m10kcod.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: org.Mm.eg.db


> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/m10kcod.db/m10kcodORGANISM.Rd_%03d_medium.png", width=480, height=480)
> ### Name: m10kcodORGANISM
> ### Title: The Organism information for m10kcod
> ### Aliases: m10kcodORGANISM m10kcodORGPKG
> ### Keywords: datasets
> 
> ### ** Examples
> 
>   m10kcodORGANISM
[1] "Mus musculus"
>   m10kcodORGPKG
[1] "org.Mm.eg"
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>