Entering edit mode
Crispin Miller
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@crispin-miller-264
Last seen 10.3 years ago
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@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
**********************************************************************
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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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