[BioC] qc.affy problem

Crispin Miller CMiller at PICR.man.ac.uk
Fri Apr 22 17:05:22 CEST 2005

Hi Steve,
I've just checked and this and uploaded a fix to the development branch
Hopefully it should bubble through and appear on the website in the next
few days...


-----Original Message-----
From: bioconductor-bounces at stat.math.ethz.ch
[mailto:bioconductor-bounces at stat.math.ethz.ch] On Behalf Of Steve
Sent: 22 April 2005 14:42
To: bioconductor at stat.math.ethz.ch
Subject: [BioC] qc.affy problem


I am using 'simpleaffy' V 2.10 on Solaris R 2.0.1 and I get an error
when running qc.affy

 > x
AffyBatch object
size of arrays=732x732 features (20935 kb)
cdf=Mouse430A_2 (22690 affyids)
number of samples=5
number of genes=22690

 > x.mas5
Expression Set (exprSet) with
         22690 genes
         5 samples
                  phenoData object with 2 variables and 5 cases
                 sample: sample
                 treatment: treatment

 >qc <- qc(x,x.mas5)
Error in qc.affy(unnormalised, ...) : I'm sorry, I do not know about
chip type: mouse430a2cdf

Even though I have installed mouse430a2cdf.

Thanks for any help in advance,

Computational Biology Research Group
Medical Sciences Division
Weatherall Institute of Molecular Medicine/Sir William Dunn School
Oxford University

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