[BioC] limma genedata

[Dennis Hazelett]

Hello all,
Thankyou for your suggestions yesterday (re: getting started), they were 
extremely helpful. Now I have a more specific question about the limma 
User's guide. In section 8.2 on the 2-sample w/reference method, the 
plot commands reference an object "genelist" that points nowhere for me. 
I have to delet the item to get the command to work, and this causes 
results to be returned absent identifiers. I'm referring to the 
following command:

toptable(coef=2,number=15,genelist=genelist[,1:6],fit=fit,eb=eb,adjust="fdr")

? Can I replace

genelist=genelist[,1:6]

with
genelist=RG$genes
or something similar? It seems to be necessary to get the names of the 
genes in the output from Bayes analysis. I am using a non-model organism 
with some cDNA libs of my own construction, so only a fraction of the 
clones are sequenced and the rest have clone ID's.
By the way, most of the image links in the LIMMA User's Guide are broken.
-Dennis
p.s. I'm working from a debian linux platform.