Hello:
I searched the group but got no results ... So I want to know, how to
extract the raw probe intensity from .CEL file?
The file structure on my computer is like:
~/experiemnt/
annotationData/
chipTypes/
HG-U133_Plus_2/
HG-U133_Plus_2.cdf
~/experiment/
rawData/
KN01M013/
HG-U133_Plus_2/
KN01M013.CEL
The .cdf file is downloaded from
http://www.aroma-project.org/chipTypes/HG-U133_Plus_2
When I run R under ~ directory:
library(aroma.affymetrix)
csR <- AffymetrixCelSet$byName("KN01M013",chipType="HG-U133_Plus_2")
I got error msg:
Error in list(`AffymetrixCelSet$byName("KN01M013", chipType = "HG-
U133_Plus_2")` = <environment>, :
[2011-08-08 11:24:05] Exception: Could not locate a file for this chip
type: HG-U133_Plus_2
at throw(Exception(...))
at throw.default("Could not locate a file for this chip type: ",
paste(c(chipT
at throw("Could not locate a file for this chip type: ",
paste(c(chipType, tag
at method(static, ...)
at AffymetrixCdfFile$byChipType(chipType)
at method(static, ...)
at AffymetrixCelSet$byName("KN01M013", chipType = "HG-U133_Plus_2")
Could anyone help me figure how this error happened ? And how to do
it ( extract raw probe intensity ) in a right way ? Thanks
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