Hi

I do not know how you export the data from BeadStudio but looking at you file it looks like you are using the sample probe profile (since you have the ProbeID). I also got some errors when I used that file but when I started to use the sample gene profile file (without the probeID)the error was gone. I also use the "export to GeneSpring format" option.

Regards,
Ingrid 
 
Hello,

I got following error " attempt to set rownames on object with no 
dimensions" when I use lumiR to read data file that was exported from 
BeadStudio software. Your help would be greatly appreciated,

Wayne
--


 > library(lumi)
Loading required package: Biobase
Loading required package: tools

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'openVignette()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation(pkgname)'.

Loading required package: affy
Loading required package: affyio
Loading required package: mgcv
This is mgcv 1.3-23
Loading required package: annotate
 > file<-'probeprofile.txt'
 > data <- lumiR(file)
Error in `rownames<-`(`*tmp*`, value = c("6960451", "2850504", "7560397",  :
        attempt to set rownames on object with no dimensions


the beginning portion of the input data file 'probeprofile.txt'

TargetID 	ProbeID 	1825389103_A.AVG_Signal 	1825389103_A.BEAD_STDEV 
1825389103_A.Detection Pval
ILMN_10000 	6960451 	250.1372 	8.470804 	0.002183
ILMN_100000 	2850504 	114.0987 	5.470057 	0.334061
ILMN_100007 	7560397 	113.8673 	4.840002 	0.34425

_______________________________________________
Bioconductor mailing list
Bioconductor@stat.math.ethz.ch
https://stat.ethz.ch/mailman/listinfo/bioconductor
Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor


	[[alternative HTML version deleted]]

