Constructor for aafChromLoc objects

Description

For the given probeids, constructs an aafList of aafChromLoc objects containing annotation data from the chip data package.

Usage

aafChromLoc(probeids, chip)

Arguments

Value

An aafList of aafChromLoc objects. NA values are returned as empty objects.

Author(s)

Colin A. Smith, annaffy@colinsmith.org

See Also

aafChromLoc-class

Examples

if (require(hgu95av2.db)) {
    data(aafExpr)
    probes <- featureNames(aafExpr)
    locations <- aafChromLoc(probes, "hgu95av2.db")
    show(locations[6:10])
}

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
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> library(annaffy)
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: GO.db
Loading required package: AnnotationDbi
Loading required package: stats4
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

> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/annaffy/aafChromLoc.Rd_%03d_medium.png", width=480, height=480)
> ### Name: aafChromLoc
> ### Title: Constructor for aafChromLoc objects
> ### Aliases: aafChromLoc
> ### Keywords: file
> 
> ### ** Examples
> 
> if (require(hgu95av2.db)) {
+     data(aafExpr)
+     probes <- featureNames(aafExpr)
+     locations <- aafChromLoc(probes, "hgu95av2.db")
+     show(locations[6:10])
+ }
Loading required package: hgu95av2.db
Loading required package: org.Hs.eg.db


An object of class "aafList"
[[1]]
An object of class "aafChromLoc"
[1] -123237843 -123237843 -123241366 -123237843 -123237843 -123241366

[[2]]
An object of class "aafChromLoc"
[1] -112013973

[[3]]
An object of class "aafChromLoc"
[1] -21077103

[[4]]
An object of class "aafChromLoc"
[1] 56367794 56367696

[[5]]
An object of class "aafChromLoc"
[1] -34845554

> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>