Problem with negative gene locations
1
0
Entering edit mode
Naira Naouar ▴ 40
@naira-naouar-3263
Last seen 9.6 years ago
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_TELEPHON E=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 -- ================================================================== Na?ra 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
Microarray ath1121501 Microarray ath1121501 • 648 views
ADD COMMENT
0
Entering edit mode
Naira Naouar ▴ 40
@naira-naouar-3263
Last seen 9.6 years ago
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_MONETA RY=C;LC_MESSAGES=en_US;LC_PAPER=en_US;LC_NAME=C;LC_ADDRESS=C;LC_TELEPH ONE=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 > > > > > -- ================================================================== Na?ra 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
ADD COMMENT

Login before adding your answer.

Traffic: 878 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6