[BioC] Can't make.cdf.env from HuEx-1_0-st-v2.text.cdf

[Henrik Bengtsson]

See also aroma.affymetrix [ http://www.braju.com/R/aroma.affymetrix/
].  Several people at Berkeley and WEHI doing research on exon arrays
have added their methods to the package.  It will work with minimal
memory requirements.  On the above URL, you'll find online docs and
vignettes on exon array analysis (using FIRMA).

/Henrik

On Fri, May 9, 2008 at 6:04 AM, James W. MacDonald
<jmacdon at med.umich.edu> wrote:
> Hi Stanley,
>
> If you had taken the time to do a couple of searches, you would have found:
>
> a.) The makecdfenv/affy pipeline doesn't handle exon arrays.
> b.) The error you see is because you don't have enough memory.
>
> To do any exon analysis you could use makePlatformDesign/oligo, xps or
> exonmap. Two of which will likely require a machine with more RAM than you
> currently have. You might be able to get by using xps.
>
> Best,
>
> Jim
>
>
>
> Ng Stanley wrote:
>>
>> Hi
>>
>> I am having difficulties creating the cdfenv for Human Exon 1.0 st.
>>
>>> HuEx10stv2cdf <- make.cdf.env("libv1/HuEx-1_0-st-v2.text.cdf")
>>
>> Reading CDF file.
>> Error: cannot allocate vector of size 1 Kb
>>
>> Thanks
>> Stanley
>>
>>        [[alternative HTML version deleted]]
>>
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> --
> James W. MacDonald, M.S.
> Biostatistician
> Affymetrix and cDNA Microarray Core
> University of Michigan Cancer Center
> 1500 E. Medical Center Drive
> 7410 CCGC
> Ann Arbor MI 48109
> 734-647-5623
>
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