Dear R users,
I am using the beadarray package. I am trying to upload raw bead-level data using these commands:
 
########################################################
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@ars.usda.gov
http://www.ars.usda.gov/pandp/people/people.htm?personid=37662

	[[alternative HTML version deleted]]


