Hi,
Sorry for the indistinctness. You are correct; these are indeed R-packages (CDF 
environments), thus not *files*. However, it won't be much effort to also make 
them available as files. I/we will have a look at it the next couple of days. 
We will also check the links/info and update them when needed.
Guido 

-----Original Message-----
From: aroma-affymetrix@googlegroups.com 
[mailto:aroma-affymetrix@googlegroups.com] On Behalf Of Henrik Bengtsson
Sent: Friday, December 07, 2012 17:51
To: aroma-affymetrix@googlegroups.com
Subject: Re: [aroma.affymetrix] Gene 2.0 ST arrays

Hi.

On Fri, Dec 7, 2012 at 5:21 AM, Hooiveld, Guido <guido.hooiv...@wur.nl> wrote:
> Hi,
> To follow up on Henrik's suggestion: we recently have made 
> Bioconductor-compatible ('unofficial') CDFs for the STv2.0/2.1 arrays as 
> well, essentially using the PD.Info packages. Please find them here:
> http://nmg-r.bioinformatics.nl/

This great.  To clarify, are you creating/releasing CDF *files*, or only the 
various flavors of R packages containing that information?
I see that you are referring to 'PdInfo2Cdf.R'(*) on the site, which indicates 
CDF files, but I cannot find such.  (*) BTW, that script has now been replaced 
by http://aroma-project.org/howtos/createCdfFromBioconductorPlatformDesignInfo

Thanks,

Henrik

> HTH,
> Guido
>
> -----Original Message-----
> From: aroma-affymetrix@googlegroups.com 
> [mailto:aroma-affymetrix@googlegroups.com] On Behalf Of Henrik 
> Bengtsson
> Sent: Thursday, December 06, 2012 21:45
> To: aroma-affymetrix@googlegroups.com
> Subject: Re: [aroma.affymetrix] Gene 2.0 ST arrays
>
> On Thu, Dec 6, 2012 at 5:54 AM, Maria Traka <maria.tr...@ifr.ac.uk> wrote:
>> Hi guys,
>> probably you've already given the answer somewhere but can i use 
>> aroma.affymetrix to analyse Affymetrix 2.0 ST arrays (human and mouse)?
>> Presumably the same way as 1.0 arrays?
>
> I'm not working with those myself, and I don't know the exact design details 
> on those chips, but, yes, most likely the same way as the previous ST arrays.
>
> What is not available out of the box is a CDF file for these 2.0 ST 
> arrays (i.e. HuGene-2_0-st-v1 and ).  Unless you find such CDFs from 
> the various groups providing custom CDFs, you need to create them 
> yourselves.  Here you've got a few options, but I would try with 
> what's explained in how-to page 'Create a CDF file from Bioconductor 
> Platform Design (PD) Info package', which you find via 
> http://aroma-project.org/howtos/
>
> /Henrik
>
>>
>> Thanks in advance,
>> Maria
>>
>> --
>> When reporting problems on aroma.affymetrix, make sure 1) to run the 
>> latest version of the package, 2) to report the output of
>> sessionInfo() and traceback(), and 3) to post a complete code example.
>>
>>
>> You received this message because you are subscribed to the Google 
>> Groups "aroma.affymetrix" group with website http://www.aroma-project.org/.
>> To post to this group, send email to 
>> aroma-affymetrix@googlegroups.com To unsubscribe and other options, 
>> go to http://www.aroma-project.org/forum/
>
> --
> When reporting problems on aroma.affymetrix, make sure 1) to run the latest 
> version of the package, 2) to report the output of sessionInfo() and 
> traceback(), and 3) to post a complete code example.
>
>
> You received this message because you are subscribed to the Google Groups 
> "aroma.affymetrix" group with website http://www.aroma-project.org/.
> To post to this group, send email to aroma-affymetrix@googlegroups.com 
> To unsubscribe and other options, go to 
> http://www.aroma-project.org/forum/
>
>
>
>
> --
> When reporting problems on aroma.affymetrix, make sure 1) to run the latest 
> version of the package, 2) to report the output of sessionInfo() and 
> traceback(), and 3) to post a complete code example.
>
>
> You received this message because you are subscribed to the Google Groups 
> "aroma.affymetrix" group with website http://www.aroma-project.org/.
> To post to this group, send email to aroma-affymetrix@googlegroups.com 
> To unsubscribe and other options, go to 
> http://www.aroma-project.org/forum/

--
When reporting problems on aroma.affymetrix, make sure 1) to run the latest 
version of the package, 2) to report the output of sessionInfo() and 
traceback(), and 3) to post a complete code example.


You received this message because you are subscribed to the Google Groups 
"aroma.affymetrix" group with website http://www.aroma-project.org/.
To post to this group, send email to aroma-affymetrix@googlegroups.com
To unsubscribe and other options, go to http://www.aroma-project.org/forum/




-- 
When reporting problems on aroma.affymetrix, make sure 1) to run the latest 
version of the package, 2) to report the output of sessionInfo() and 
traceback(), and 3) to post a complete code example.


You received this message because you are subscribed to the Google Groups 
"aroma.affymetrix" group with website http://www.aroma-project.org/.
To post to this group, send email to aroma-affymetrix@googlegroups.com
To unsubscribe and other options, go to http://www.aroma-project.org/forum/

Reply via email to