Entering edit mode
Chanchal Kumar
▴
130
@chanchal-kumar-2465
Last seen 10.2 years ago
Dear Bioconductor Developers and Users,
I have a custom annotation package which I created using
"AnnBuilder"
package. The package named "ipihs324" has annotation for IPI
identifiers
and contains mappings to Entrez ids in the environment variable
ipihs324ENTREZID.
Now when I provide this environment directly like :
l <- mget("IPI00000948",ipihs324ENTREZID,ifnotfound=list("FALSE"))
then I get result.
> l
$IPI00000948
[1] 26608
But if I try as following:
> env<-paste("ipihs324","ENTREZID",sep="")
> l <- mget("IPI00000948",env,ifnotfound=list("FALSE"))
I get this error:
##########################
Error in mget("IPI00000948", env, ifnotfound = list("FALSE")) :
second argument must be an environment
##########################
As I want to write a generic code for loading any data package and
then
retrieve its environment for Entrez ids mappings, so I need to do it
this second way. Can anyone suggest how to convert the string type to
an
environment type? I have tried as.environment() but that too doesn't
work. Any suggestions and comments will be very helpful.
Best Regards,
Chanchal
===============================
Chanchal Kumar, Ph.D. Candidate
Dept. of Proteomics and Signal Transduction
Max Planck Institute of Biochemistry
Am Klopferspitz 18
82152 D-Martinsried (near Munich)
Germany
e-mail: chanchal at biochem.mpg.de
Phone: (Office) +49 (0) 89 8578 2296
Fax:(Office) +49 (0) 89 8578 2219
http://www.biochem.mpg.de/mann/
===============================
