Dear Vitalina,
 
I found your article on the Web concerning the problem in using
BeadExplorer.
I have the similar problem as you had.
I was wondering if you have solved it.
If so, how did you create qcinfo.csv file and handle the problem?
 
Thanks for your response in advance.
 
Keon Myung, 
 
 
 
 

 

Dear all,
I am trying to use BeadExplorer to load Illumina Mouse8 arrays for 
analysis.
I used the latest BeadStudio software version to generate expression 
data, but it actually does not give summary  files such as 
gene.profile.csv and qcinfo.csv, so I had to save them separately when I 
opened the data. Here the error I constantly get when I load the data:
 > data<-beadAnalysis()
Read C:/Program Files/R/R-2.4.0/data/mouse_copy_sample_gene_profile.csv
Normalised data...
Generated qc data...
Error in sum(detExprs(beadData)[, i] > value) :
        subscript out of bounds
In addition: Warning message:
no non-missing arguments to min; returning Inf
 
There are no header lines when I save my data directly from BeadStudio. 
Does it matter?
 
R info:
 > sessionInfo()
R version 2.4.0 (2006-10-03)
i386-pc-mingw32
 
locale:
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"     "tcltk"     "methods"   "stats"     "graphics"  "grDevices"
[7] "utils"     "datasets"  "base"    
 
other attached packages:
     convert       marray        limma BeadExplorer    tkWidgets       
DynDoc
     "1.8.0"     "1.12.0"      "2.9.1"      "1.2.0"     "1.12.0"     
"1.12.0"
      R2HTML         affy       affyio  widgetTools      Biobase
      "1.58"     "1.12.0"      "1.2.0"     "1.10.0"     "1.12.1"
 
I will appreciate any help. Thank you!
Vitalina.
 

 


	[[alternative HTML version deleted]]

