[BioC] Envir. drosgenome1, GENENAME not defined?
Emmanuel Levy
emmanuel.levy at gmail.com
Thu Mar 23 17:19:42 CET 2006
Dear Bioconductor community,
I just started working with the drosgenome1 environment.
When I try to get the gene names from drosgenome1GENENAME,
I only get 5 gene names and 14005 NA values.
> table(GN)
GN
Fas (TNF receptor superfamily member)
1
FBJ murine osteosarcoma viral oncogene homolog
1
interleukin 10
1
interleukin 2
1
interleukin 4
1
NA
14005
A couple of other environments seem to be empty (SUMFUNC, PATH ...)
Is that normal?
Many thanks in advance for your comments,
Emmanuel
> sessionInfo()
R version 2.2.1, 2005-12-20, x86_64-redhat-linux-gnu
attached base packages:
[1] "tools" "methods" "stats" "graphics" "grDevices" "utils"
[7] "datasets" "base"
other attached packages:
drosgenome1 drosgenome1cdf annotate annaffy KEGG
"1.10.0" "1.10.0" "1.8.0" "1.2.0" "1.8.1"
GO affy Biobase
"1.8.2" "1.8.1" "1.8.0"
=====================================
drosgenome1 INSTALL INFO
> biocLite("drosgenome1")
Running bioCLite version 0.1 with R version 2.2.1
Running biocinstall version 1.1 with R version 2.2.1
trying URL 'http://www.bioconductor.org/packages/data/annotation/1.7/src/contrib/drosgenome1_1.10.0.tar.gz'
Content type 'application/x-gzip' length 3374185 bytes
opened URL
==================================================
downloaded 3295Kb
* Installing *source* package 'drosgenome1' ...
** R
** data
** moving datasets to lazyload DB
** help
>>> Building/Updating help pages for package 'drosgenome1'
Formats: text html latex example
drosgenome1 text html latex
drosgenome1ACCNUM text html latex example
drosgenome1CHR text html latex example
drosgenome1CHRLOC text html latex example
drosgenome1ENZYME text html latex example
drosgenome1GENENAME text html latex example
drosgenome1GO text html latex example
drosgenome1GO2ALLPROBES text html latex example
drosgenome1GO2PROBE text html latex example
drosgenome1LOCUSID text html latex example
drosgenome1MAP text html latex example
drosgenome1ORGANISM text html latex example
drosgenome1PATH text html latex example
drosgenome1PMID text html latex example
drosgenome1PMID2PROBE text html latex example
drosgenome1QC text html latex
drosgenome1REFSEQ text html latex example
drosgenome1SUMFUNC text html latex example
drosgenome1SYMBOL text html latex example
drosgenome1UNIGENE text html latex example
** building package indices ...
* DONE (drosgenome1)
The downloaded packages are in
/tmp/RtmpU18540/downloaded_packages
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