[BioC] .CEL file

[James W. MacDonald]

Hi Prabhakar,

On Thursday, March 27, 2014 4:32:27 PM, prabhakar ghorpade wrote:
> Hi,
>     How can I view .CEL file? Is it possible to make dummy .CEL file for analysis?

Can you expand on this a bit? What exactly are you trying to do?

The celfile format is quite complicated, so creating a dummy file is 
likely to be more work than just getting some data from say, GEO or 
ArrayExpress and doing whatever you want.

As for viewing a celfile, depending on what you mean by that, there are 
multiple options.

1.) If the celfile is text, you can just send it to stdout using 'cat'. 
Or if it is binary you can use the celfile converter to make it text, 
and then use cat 
(http://www.affymetrix.com/support/developer/downloads/Tools/CelFileConversion.ZIP)

2.) You could use the various functions in affxparser (readCel, 
readCelHeader, readCelIntensities, etc).

3.) You could use functions in affyio, either directly or via the affy 
package. Or if the array you care about is a more modern version, then 
you could use oligo and the respective pdInfoPackage. Or probably use 
some functions in xps that I don't know about.

Best,

Jim


>
> Regards,
> Prabhakar
>
> Dr. Ghorpade Prabhakar B.
> PhD Scholar ( Veterinary Biochemistry),
> IVRI,
> Izatnagar,
> Bareilly, U.P.,
> India
> 	[[alternative HTML version deleted]]
>
>
>
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--
James W. MacDonald, M.S.
Biostatistician
University of Washington
Environmental and Occupational Health Sciences
4225 Roosevelt Way NE, # 100
Seattle WA 98105-6099