[BioC] Question about using ReadAffy() to read CEL files

[James W. MacDonald]

Xiaoyu Jia wrote:
> Dear friends,
> 
> I am trying to read CELfiles using ReadAffy() command.  I stored all my
> CEL files in a directory and use the following commands:
> 
> 
>>library(affy)
>>mydata<-ReadAffy()
> 
> Error in read.affybatch(filenames = l$filenames, phenoData =
> l$phenoData,  : 
>         Is C:/Documents and Settings/Desktop/kumar/data03-15/Kumar
> 001.CEL really a CEL file? tried reading as text, gzipped text and
> binary

Odd. I don't have any problems reading in these files.

 > dat <- ReadAffy()
 > sampleNames(dat)
[1] "Kumar 001.CEL" "Kumar 002.CEL" "Kumar 003.CEL" "Kumar 004.CEL" 
"Kumar 005.CEL" "Kumar 006.CEL"
[7] "Kumar 007.CEL" "Kumar 008.CEL"

It may be that they are corrupted. Are they all ~2786 Kb in size?

Jim



> 
> 
> I do not understand why this happened.  Could anybody help me out?  
> 
> Thank you very much.
> 
> Sharrie
> 
> 
> **********************************************************
> Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues.
> 
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at stat.math.ethz.ch
> https://stat.ethz.ch/mailman/listinfo/bioconductor


-- 
James W. MacDonald
Affymetrix and cDNA Microarray Core
University of Michigan Cancer Center
1500 E. Medical Center Drive
7410 CCGC
Ann Arbor MI 48109
734-647-5623