Hi,
I've been trying to follow some of the QC steps listed on "Analysis of
Bead-level Data using beadarray" (dated October 23, 2010)
Seems like BLData variable is hardcoded:

>library(beadarray)
>ar1 = readIllumina(dir = "4849554032", useImages = FALSE,
illuminaAnnotation = "Humanv3", metricsFile = "Metrics.txt")
.....
> boxplot(ar1, las = 2, outline = FALSE, ylim = c(4,12), main = "Green
Foreground")
Error in getBeadData(BLData, array = array, what = "Grn") :
  object 'BLData' not found
> boxplot(BLData=ar1, las = 2, outline = FALSE, ylim = c(4,12), main =
"Green Foreground")
Error in list(x, ...) : 'x' is missing
> BLData = ar1
> boxplot(BLData) #this works

Thanks,
Ying Wu

> sessionInfo()
R version 2.12.0 (2010-10-15)
Platform: i486-pc-linux-gnu (32-bit)

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

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

other attached packages:
[1] beadarray_2.0.1 Biobase_2.10.0

loaded via a namespace (and not attached):
[1] limma_3.6.4  tcltk_2.12.0 tools_2.12.0

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