[BioC] Problem with subset in beadarray

Julien Bauer jb393 at mole.bio.cam.ac.uk
Wed Apr 15 16:11:46 CEST 2009

Hi list,
I am trying to do some reordering-subsetting of a beadarray object 
(ExpressionSetIllumina) after having summarized the bead level data but 
I get an error, when I did the same in lumi it worked fine:
ExpressionSetIllumina (storageMode: list)
assayData: 26821 features, 8 samples

ExpressionSetIllumina (storageMode: list)
assayData: 1 features, 8 samples
Error: subscript out of bounds

 > sessionInfo()
R version 2.8.1 (2008-12-22)

LC_COLLATE=English_United Kingdom.1252;LC_CTYPE=English_United 
Kingdom.1252;LC_NUMERIC=C;LC_TIME=English_United Kingdom.1252

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

other attached packages:
 [1] beadarray_1.10.0    sma_0.5.15          hwriter_1.1       
 [4] geneplotter_1.20.0  annotate_1.20.1     xtable_1.5-5      
 [7] AnnotationDbi_1.4.3 lattice_0.17-17     limma_2.16.5      
[10] Biobase_2.2.2     

loaded via a namespace (and not attached):
[1] DBI_0.2-4          grid_2.8.1         KernSmooth_2.22-22 
[5] RSQLite_0.7-1   

Any idea what could be wrong?
Thanks a lot,

Julien Bauer


Julien Bauer

Computational Biologist

Microarray Resource Centre

Pathology department-Cambridge University

Tennis Court Road



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