[BioC] HTqPCR only works for 384 qPCR plates

[axel.klenk at actelion.com]

Dear Andreia,

not exactly, it only expects 384 plates...

Try

?readCtData

and consequently:

raw<-readCtData(files=files$File, path=path, n.features=80)

Cheers,

 - axel


Axel Klenk
Research Informatician
Actelion Pharmaceuticals Ltd / Gewerbestrasse 16 / CH-4123 Allschwil /
Switzerland



                                                                       
             Andreia Fonseca                                           
             <andreia.fonseca@                                         
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                                                                   Subject
                                       [BioC] HTqPCR only works for 384
             04/21/2010 06:29          qPCR plates                     
             PM                                                        
                                                                       
                                                                       
                                                                       
                                                                       
                                                                       




Dear all,

I have data for 80 miRNAs produced with qPCR plates, I am trying to use
HTqPCR but I am receiving an error, due to this. bellow is the error
message
and the session info.
thanks
regards,
Andreia

> raw<-readCtData(files=files$File, path=path)
Error in readCtData(files = files$File, path = path) :
  384 gene names (rows) expected, got 80




> sessionInfo()
R version 2.10.1 (2009-12-14)
x86_64-pc-linux-gnu

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C
 [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
 [5] LC_MONETARY=C              LC_MESSAGES=en_US.UTF-8
 [7] LC_PAPER=en_US.UTF-8       LC_NAME=C
 [9] LC_ADDRESS=C               LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base

other attached packages:
[1] qpcrNorm_1.4.0     affy_1.24.2        HTqPCR_1.0.0
limma_3.2.1
[5] RColorBrewer_1.0-2 Biobase_2.6.1

loaded via a namespace (and not attached):
[1] affyio_1.14.0        gdata_2.7.1          gplots_2.7.4
[4] gtools_2.6.1         preprocessCore_1.8.0 tools_2.10.1
--
--------------------------------------------
Andreia J. Amaral
Unidade de Imunologia Clínica
Instituto de Medicina Molecular
Universidade de Lisboa
email: andreiaamaral at fm.ul.pt
         andreia.fonseca at gmail.com

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