[BioC] Problem with negative gene locations

[Naira Naouar]

Sorry, I haven't read the manual :(
It's simply to to the fact that the gene is in the other strand!!!

Good luck to all with your work!!!

Naira


Naira Naouar wrote:
> Dear all,
>
> I am using the Arabidopsis affymetrix microarray and I would like to 
> collect the probeset positions on the genome.
> I used ath1121501.db and strangely, I got negative positions....
> Is this normal??
>
> >library(ath1121501.db)
> >kchrl=mappedkeys(ath1121501CHRLOC)
> > get(kchrl[2],ath1121501CHRLOC)
>     1
> -11649
> > sessionInfo()
> R version 2.8.0 (2008-10-20)
> x86_64-unknown-linux-gnu
>
> locale:
> LC_CTYPE=en_US;LC_NUMERIC=C;LC_TIME=en_US;LC_COLLATE=en_US;LC_MONETARY=C;LC_MESSAGES=en_US;LC_PAPER=en_US;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US;LC_IDENTIFICATION=C 
>
>
> attached base packages:
> [1] tools     stats     graphics  grDevices utils     datasets  methods
> [8] base
>
> other attached packages:
> [1] ath1121501.db_2.2.7 RSQLite_0.5-6       DBI_0.2-3
> [4] AnnotationDbi_1.4.3 Biobase_2.2.2
>
>
>
>
>


-- 
==================================================================
Naïra Naouar 

Tel:+32 (0)9 331 38 63
VIB Department of Plant Systems Biology, Ghent University
Technologiepark 927, 9052 Gent, BELGIUM
nanao at psb.vib-ugent.be                         http://www.psb.vib-ugent.be