[BioC] Error with beadarray example

Juan Lewinger lewinger at usc.edu
Fri Dec 5 10:34:02 CET 2008

As a way to learn the beadarray package (I'm new to microarray analysis and have some Illumina microarray summary data to analyze) I've tried the example in the document "bead-summary data using beadarray". As indicated in the document I downloaded and unzipped the example summary data from:


However, I get the following error message when issuing the example commands:

> setwd('C:/Projects/beadarray/BeadSummaryExample')

> library(beadarray)
> dataFile <- "SampleProbeProfile.txt"
> sampleSheet <- "SampleSheet.csv"
> qcFile <- "ControlGeneProfile.txt"
> BSData = readBeadSummaryData(dataFile = dataFile, qcFile = qcFile, sampleSheet = sampleSheet, controlID = "TargetID")

Error in .nextMethod(e1, e2) :
  comparison of these types is not implemented

I'm using beadarray 1.10.0  and R 2.8.0 on windows XP (session info below). I'd appreciate any help!

Juan Pablo Lewinger
Department of Preventive Medicine
University of Southern California

> sessionInfo()
R version 2.8.0 (2008-10-20)

LC_COLLATE=English_United States.1252;LC_CTYPE=English_United States.1252;LC_MONETARY=English_United States.1252;LC_NUMERIC=C;LC_TIME=English_United States.1252

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

other attached packages:
[1] beadarray_1.10.0   sma_0.5.15         hwriter_0.93       geneplotter_1.14.0 lattice_0.17-17    annotate_1.14.1  
[7] Biobase_1.14.1     limma_2.9.17     

loaded via a namespace (and not attached):
[1] AnnotationDbi_1.2.2 DBI_0.2-4           grid_2.8.0          KernSmooth_2.22-22  RColorBrewer_1.0-2  RSQLite_0.7-1

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