[BioC] Problems with justGCRMA: Error in bg.adjust.fullmodel
Jordi Altirriba Gutiérrez
altirriba at hotmail.com
Thu Aug 25 12:10:23 CEST 2005
Dear users,
Im trying to obtain the GCRMA expression values of 26 Affymetrix
microarrays (HGU133plus2). Due to a limitation of RAM (2Gb), I cant use
GCRMA directly:
Data<-ReadAffy()
esetGCRMA<-GCRMA(Data)
So Im trying to do it with justGCRMA, but Im obtaining this error:
>esetGCRMA<-justGCRMA(filenames=list.celfiles(),type="fullmodel",optimize.by="memory",fast=TRUE)
Computing affinities..Done.
Adjusting for optical effect...........................Done.
Adjusting for non-specific binding.Error in bg.adjust.fullmodel(pms[, i],
mm, pm.affinities, mm.affinities, :
unused argument(s) (Q ...)
Ive also tried with
just.gcrma(filenames=list.celfiles),type="fullmodel",optimize.by="memory",fast=TRUE)
But Im obtaining the same error.
The data of my computer and R:
PC: Intel centrino M 2GHz
OS: Windows XP pro
R version 2.1.0, 2005-06-02, i386-pc-mingw32
attached base packages:
[1] "tools" "methods" "stats" "graphics" "grDevices" "utils"
"datasets" "base"
other attached packages:
vsn plier gcrma matchprobes affy reposTools
"1.6.3" "1.0.0" "1.1.3" "1.0.22" "1.6.7" "1.5.19"
Biobase
"1.5.12"
Any help will be very much appreciated.
Thanks for your time
Jordi Altirriba
PhD student
Hospital Clinic (Barcelona, Spain)
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