[BioC] Error in qc.affy(unnormalised, ...) : I'm sorry, I do not know about chip type: moe430acdf

[Dick Beyer]

Hi Crispin,

Thanks very much for looking into this problem.  Here is what cdfName gives me:

> cdfName(exp1.all.raw)
[1] "MOE430A"

Cheers,
Dick
*******************************************************************************
Richard P. Beyer, Ph.D.	University of Washington
Tel.:(206) 616 7378	Env. & Occ. Health Sci. , Box 354695
Fax: (206) 685 4696	4225 Roosevelt Way NE, # 100
 			Seattle, WA 98105-6099
http://depts.washington.edu/ceeh/ServiceCores/FC5/FC5.html
http://staff.washington.edu/~dbeyer
*******************************************************************************

On Mon, 11 Jul 2005, Crispin Miller wrote:

> Hi Dick,
> I'll have a look and get back to you...
> The problem is with inconsistencies in array names - out of interest,
> what does cdfName(exp1.all.raw) give you?
> Cheers,
>
> Crispin
>
>
> -----Original Message-----
> From: bioconductor-bounces at stat.math.ethz.ch
> [mailto:bioconductor-bounces at stat.math.ethz.ch] On Behalf Of Dick Beyer
> Sent: 08 July 2005 17:25
> To: Bioconductor
> Subject: [BioC] Error in qc.affy(unnormalised, ...) : I'm sorry, I do
> not know about chip type: moe430acdf
>
> I am getting an error running simpleaffy on some moe430a chips:
>
>
>> qc <- qc(exp1.all.raw,exp1.mas5)
> Error in qc.affy(unnormalised, ...) : I'm sorry, I do not know about
> chip type:
> moe430acdf
>> exp1.all.raw
> AffyBatch object
> size of arrays=712x712 features (47532 kb) cdf=MOE430A (22690 affyids)
> number of samples=12 number of genes=22690 annotation=moe430a
>> sessionInfo()
> R version 2.1.1, 2005-06-20, i386-pc-mingw32
>
> attached base packages:
> [1] "tools"     "methods"   "stats"     "graphics"  "grDevices"
> [6] "utils"     "datasets"  "base"
>
> other attached packages:
>  simpleaffy        limma     siggenes       qvalue
>    "2.0.13"      "2.0.2"     "1.2.17"        "1.1"
>       gcrma moe430aprobe  matchprobes         affy
>     "1.1.4"        "1.1"     "1.0.22"      "1.6.7"
>  reposTools   moe430acdf      moe430a      annaffy
>    "1.5.19"      "1.5.1"      "1.8.5"     "1.0.18"
>        KEGG           GO      Biobase
>     "1.6.5"      "1.6.5"     "1.5.12"
>
> Back on January 19th, Crispin Miller told me that this was probably
> fixed in simpleaffy 2.07.  I'm hoping someone could check this out
> again, or notice what I am doing wrong.
>
> Thanks very much,
> Dick
> ************************************************************************
> *******
> Richard P. Beyer, Ph.D.	University of Washington
> Tel.:(206) 616 7378	Env. & Occ. Health Sci. , Box 354695
> Fax: (206) 685 4696	4225 Roosevelt Way NE, # 100
> 			Seattle, WA 98105-6099
> http://depts.washington.edu/ceeh/ServiceCores/FC5/FC5.html
> http://staff.washington.edu/~dbeyer
>
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