[R] beadarray package

[Uwe Ligges]

Vallejo, Roger wrote:
> Dear R users,
> I am using the beadarray package. I am trying to upload raw bead-level data using these commands:
>

"beadarray" is a BioConductor package. You may want to report it again 
on the BioC mailing list, perhaps with some *reproducible* example...

Best,
Uwe Ligges





> ########################################################
> library(beadarray)
> 
> datadir <- ("C:/Computer_programs/R/beadarray/cecilia")
> 
> targets = read.table("targets.txt", sep = "\t", header = TRUE, as.is = TRUE)
> 
> BLData = readIllumina(arrayNames =NULL, useImages=TRUE, singleChannel=FALSE, backgroundMethod ="rma", annoPkg= NULL, metrics=FALSE, metricsFile="Metrics.txt", normalizeMethod="quantile", tiffExtGrn="_Grn.TIF", tiffExtRed="_Red.TIF")
> ####################################################
> 
> After the above last command (4th one), I got this error message:
> 
> ******************************************************************
> Found 96 arrays 
> Error in order(dat1$ProbeID) : object 'dat1' not found
> In addition: Warning message:
> In readIllumina(arrayNames = NULL, useImages = TRUE, singleChannel = FALSE,  :
>   No annotation package was specified. Need to use SetAnnotation later
> ******************************************************************
> 
> I will apreciate help to troubleshoot this error. 
> Thank you very much.
> Roger
> 
> 
> Roger L. Vallejo, Ph.D.
> Computational Biologist & Geneticist
> U.S. Department of Agriculture, ARS
> National Center for Cool & Cold Water Aquaculture
> 11861 Leetown Road
> Kearneysville, WV 25430
> Voice:  (304) 724-8340 Ext. 2141
> Email:  roger.vallejo at ars.usda.gov
> http://www.ars.usda.gov/pandp/people/people.htm?personid=37662
> 
> 	[[alternative HTML version deleted]]
> 
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