[BioC] lumi Package lumiR error

[wayne xu]

Thanks Ingrid for your response. I also got response from Dr Pan Du. I 
used lumi1.2, the newest lumi1.3.35 resolved that problem. I will also 
try your suggestion,

Thanks again,
Wayne
--

Ingrid H. G. Østensen wrote:
> 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
>
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