Dear Wolfgang,

Thanks for your reply !

Regarding the error-message, I have it even reinstalled (following the
instructions from Bioconductor webpage), but still getting no escape from
it. While searching on the web on it, I didn't get the solution but found
people mentioning about it:

http://www.google.com/search?hl=en&q=%22is+not+a+valid+package+--+installed+%3C+2.0.0%3F%22&btnG=Search

Cheers,
Chintanu

= = = = = =  = = = = =  = = = = = = =


On Feb 9, 2008 1:00 AM, Wolfgang Huber <huber@ebi.ac.uk> wrote:

> Dear Chintanu,
>
> the target file can be (needs to be) produced by you, it is a way of
> telling the various subsequent analysis methods which biological samples
> were on which array, which colour etc.
>
> Regarding installation, please do follow the instructions at
> http://www.bioconductor.org/download
>
> Best wishes
>  Wolfgang
>
> ------------------------------------------------------------------
> Wolfgang Huber  EBI/EMBL  Cambridge UK  http://www.ebi.ac.uk/huber
>
>
> Chintanu scripsit:
> > Hi All,
> >
> > I'm a novice both to R and microarray, and am struggling to learn both
> by
> > myself.  Currently, I have got a microarray dataset from a research lab
> > which contains cDNA and Affymetrix data files. The R-based literature
> refers
> > many times to a file that contains target description (a .txt file with
> > names like target.txt). But my dataset interestingly doesn't have any of
> > such files. I am now struggling to find out how important this .txt file
> is
> > as otherwise I have all the relevant image processing output files (e.g
> .,
> > .gpr file). From the literature, I do understand that the so-called
> 'target
> > file' contains information about the RNA samples used as targets in the
> > microarray experiment, yet I'm wondering whether such files may be
> created
> > at one's end too. Or, is it ONLY the relevant lab which can give me this
> > file and else I can't move ahead!
> >
> >
> >
> > However, I do see that there is an information file in the dataset which
> > talks about the patient's name, file name and so on, but somehow I am
> > pessimistic that this is the file I am looking for (a part of it is
> attached
> > below).
> >
> >
> >
> > Patients   File         Cy5                Cy3
> > Gal_File
> >                    GenePix            Notes
> >
> > PreB1     B1a         Test               Control Pool
> > HS_10.5K_GP.gal
> > Pro 3.0
> >
> >               B1b         Test               Control Pool
> > HS_10.5K_GP.gal                 Pro 3.0
> >
> >               B1cDS    Control Pool     Test
> > HS_10.5K_GP.gal                 Pro 3.0             Dye Swap
> >
> > PreB2    B2a         Test                Control Pool
> > HS_10.5K_GP.gal
> > Pro 3.0
> >
> >              B2b         Test                Control Pool
> > PMCI_10.5KSC_GP.gal         Pro 3.0
> >
> >              B2cDS    Control Pool     Test
> > HS_10.5K_GP.gal                 Pro 3.0             Dye Swap
> >
> >
> >
> >
> > *Part 2*:
> >
> > I'm also struggling to figure out why I get error messages, as below,
> while
> > loading certain packages and whether there is a way to correct this
> problem
> > .
> >
> >
> > library(marrayPlots)
> > Error in library(marrayPlots) :
> > 'marrayPlots' is not a valid package -- installed < 2.0.0?
> >
> >
> >
> > library(marrayNorm)
> > Error in library(marrayNorm) :
> > 'marrayNorm' is not a valid package -- installed < 2.0.0?
> >
> >
> > May I request you to kindly reply and help me out, please !
> >
> > Cheers,
> >
> > Chintanu
> >
> >       [[alternative HTML version deleted]]
>

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