[BioC] A summary of answers to get affyid from locusid

[Ainong Zhou]

Hi,

Thanks to John Zhang <jzhang at jimmy.harvard.edu>, Xiaochun Li 
<xiaochun at jimmy.harvard.edu>, and aedin culhane <aedin.culhane at ucd.ie> for 
their prompt answers to this question:

Here is the summary of all the answers:
(1).
 >library(annotate)
 >library("hgu95av2")
 >tt <- probesByLL("hgu95av2")

Comm: probekByLL is a new function of annotate package.  You need to update 
R to 1.9.0 in order to use it.

(2)
library(hgu95av2)
library(annotate)
source("reverseEnv.R")
Locus2affy <- reverseEnv(lib="hgu95av2", env=hgu95av2LOCUSID)
locusids <- c("3448", "2315")
affyids <- multiget(locusids, env=Locus2affy)

Comm: This probably works but I haven't tried it out.

(3)
library("hgu95av2")
library(annAffy)
lls<-c("2322", "2263", "3606", "3456", "3452", "3669", "54963", 
"9088","5581", "3433")
res<-aafSearchText("hgu95av2", "LocusLink", lls)

With one locus ID, this also works
aafSearchText("hgu95av2", "LocusLink", "3452")

Comm: This works.

Thanks again for all your help.
Best,

Ainong Zhou