On Thu, Jan 22, 2009 at 11:23 AM, Alberto Goldoni <
alberto.goldoni@eurogene.org> wrote:

> So if i have understood there is no program inside or external to R that
> can convert a jpeg or tiff file in a txt.
>

Assuming you are talking about freely available software, I do not think
so.  That said, I haven't looked into image analysis software in a couple of
years, so I would be happy to hear otherwise.


>
> so if i have agilent tiff file i need agilent program in order to obtain a
> txt final file and then of course i can use glad or acgh etc
>

Or another image analysis software that can deal with Agilent tiff images,
assuming the arrays were scanned on an Agilent scanner; their tiff format
uses some unusual tags and is composed of two layers.

Sean


>
> best regards
> -----------------------------------------------------
> Dr Alberto Goldoni, PhD
> IT Lan Manager
> Medical Genetics Unit
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> ________________________________________
> Da: seandavi@gmail.com [seandavi@gmail.com] per conto di Sean Davis [
> sdavis2@mail.nih.gov]
> Inviato: giovedì 22 gennaio 2009 16.54
> A: Alberto Goldoni
> Cc: Bioconductor mailing list
> Oggetto: Re: [BioC] Problem in reading JPEG files for CGH arrays
>
> On Thu, Jan 22, 2009 at 9:37 AM, Alberto Goldoni <
> alberto.goldoni@eurogene.org<mailto:alberto.goldoni@eurogene.org>> wrote:
> Dear all
> is it possible to read jpeg files from a Agilent scanner regarding CGH
> arrays with R....i don't know if pakages like aCGH or GLAD are able to
> import and translate in a txt file this kind of image.
>
> I think that there is no software available in Bioconductor to do image
> analysis of orange-packed arrays.  (Someone will chime in if I am incorrect
> here, I am sure.)  Also, the JPEG images are likely not to be of use,
> anyway.  You would need the tiff images to do the image analysis.  Your best
> bet is to go back to the original producers of the data and ask them for the
> text files.
>
> Sean
>
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