I have some basic problems with the ExpressionSet class of Bioconductor (as beginning user).
For example, I do the following.
gse40012 <- getGEO("GSE40012")
es40012 <- gse40012[[1]]
a40012<-addGeneInfo(es40012, annotationLibrary = "illuminaHumanv3")

Now I want to export the now available annotation from the featureData (e.g `SYMBOL`)  together with the expression matrix for post-processing in a different program. How am I doing this?

Thanks
    Chris




> sessionInfo()
R version 2.15.1 (2012-06-22)
Platform: x86_64-pc-linux-gnu (64-bit)

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C               LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
 [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8    LC_PAPER=C                 LC_NAME=C
 [9] LC_ADDRESS=C               LC_TELEPHONE=C             LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base

other attached packages:
 [1] a4Preproc_1.6.0           illuminaHumanv3.db_1.16.0 hgu133a.db_2.8.0          org.Hs.eg.db_2.8.0        RSQLite_0.11.2
 [6] DBI_0.2-5                 AnnotationDbi_1.20.3      limma_3.14.3              affy_1.36.0               GEOquery_2.24.0
[11] Biobase_2.18.0            BiocGenerics_0.4.0

loaded via a namespace (and not attached):
 [1] affyio_1.26.0         AnnotationForge_1.0.3 BiocInstaller_1.8.3   IRanges_1.16.4        parallel_2.15.1
 [6] preprocessCore_1.20.0 RCurl_1.95-3          stats4_2.15.1         tools_2.15.1          XML_3.95-0.1
[11] zlibbioc_1.4.0

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