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.vall...@ars.usda.gov
http://www.ars.usda.gov/pandp/people/people.htm?personid=37662
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