[BioC] GO terms: Annotation for HumanMethylation450

[Jinyan Huang]

> library(GO.db)
Loading required package: AnnotationDbi
Loading required package: BiocGenerics

Attaching package: ‘BiocGenerics’

The following object(s) are masked from ‘package:stats’:

    xtabs

The following object(s) are masked from ‘package:base’:

    anyDuplicated, cbind, colnames, duplicated, eval, Filter, Find,
    get, intersect, lapply, Map, mapply, mget, order, paste, pmax,
    pmax.int, pmin, pmin.int, Position, rbind, Reduce, rep.int,
    rownames, sapply, setdiff, table, tapply, union, unique

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: DBI

>  ids = c( "GO:0008150", "GO:0001869")
> result = select(GO.db, keys =ids, cols=c("DEFINITION","TERM"))
Error in eval(expr, envir, enclos) : object 'GODEFINITION' not found
> sessionInfo()
R version 2.15.1 (2012-06-22)
Platform: x86_64-unknown-linux-gnu (64-bit)

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C
 [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
 [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8
 [7] LC_PAPER=C                 LC_NAME=C
 [9] LC_ADDRESS=C               LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base

other attached packages:
[1] GO.db_2.7.1          RSQLite_0.11.2       DBI_0.2-5
[4] AnnotationDbi_1.18.4 Biobase_2.16.0       BiocGenerics_0.2.0

loaded via a namespace (and not attached):
[1] IRanges_1.14.4 stats4_2.15.1

On Tue, Apr 2, 2013 at 6:28 PM, Marc Carlson <mcarlson at fhcrc.org> wrote:
> Hi Jinyan,
>
> I can't reproduce this problem in release or devel.
>
>
> So can you please follow the posting guidelines here:
>
> http://www.bioconductor.org/help/mailing-list/posting-guide/
>
> And give me the output of your sessionInfo()?
>
>
> Thanks,
>
>
>   Marc
>
>
>
> On 04/02/2013 02:09 PM, Jinyan Huang wrote:
>>
>> result = select(GO.db, keys =ids, cols=c("DEFINITION","TERM"))
>
>
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-- 
Best wishes,

Jinyan HUANG