[BioC] HTqPCR - how to read data file with multiple samples

[Heidi Dvinge]

Hello Adam,

originally HTqPCR only read in 1 sample per file. I've recently added the
parameter n.data to readCtData() to indicate the number of sample in each
file being processed (along with fixing a few bugs). I still need to
submit this to BioC though, so you can either wait a few days and get this
from the the devel repository, or if it's urgent I can send you the
corrected readCtData() function off-list.

Cheers
\Heidi

> I have a data file (created by SDS), with 6 samples, like this:
> #  	Status	Sample	Detector	Task	Avg Ct
> 1	Analyzed	1	MammU6-4395470	Endogenous Control	22.733
> 2	Analyzed	2	MammU6-4395470	Endogenous Control	22.582
> 3	Analyzed	3	MammU6-4395470	Endogenous Control	22.656
> 4	Analyzed	4	MammU6-4395470	Endogenous Control	22.785
> 5	Analyzed	5	MammU6-4395470	Endogenous Control	22.684
> 6	Analyzed	7	MammU6-4395470	Endogenous Control	22.411
>
> I tried running:
>
>   readCtData("Data.txt", SDS=TRUE, n.features=381, type=5, Ct=6,
> header=TRUE, feature=4)
>
> the HTqPCR package reads the data file as if there were only 1 sample:
>
>   An object of class "qPCRset"
>   Size:  381 features, 1 samples
>   Feature types:		 Endogenous Control, Target
>   Feature names:		 MammU6-4395470 MammU6-4395470 MammU6-4395470 ...
>   Feature classes:
>   Feature categories:	 OK
>   Sample names:		 Data NA NA ...
>
> How do I read the data into HTqPCR so that it recognizes that I have 6
> samples?
>
> ./adam
>
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