[BioC] Problems encountered using affy in R

mary.e.logue at ucd.ie mary.e.logue at ucd.ie
Wed Mar 5 11:24:57 MET 2003

Hello everyone,

I am new to R. I have downloaded R 1.6.2 from CRAN. Then I followed 
the instructions on the bioconductor website for windows (I'm using 
windows 2000 professional) and typed in getBioC(libName="affy"). I 
answered yes to download XML version >= 0.92-2. It then said that the 
following packages were not updated: annotate, genefilter, geneplotter, 
edd, ROC, multtest, affy. vsn, Biobase, tkWidgets.

I then installed affy using the install package option in R. 

I then loaded affy by typing library(affy) and tried to read in some files 
by typing affyfiles <- ReadAffy (widget=T). It gave the following 

Loading required package: tkWidgets
Loading required package: tcltk
Error in firstlib(which.lib.loc, package):
             TCD_library is not set
Error in eval(expr, envir, enclos): tcl/tk package 'tcltk' not available --
forget about 'tkWidgets'!

I don't know what to do now so your help would be very much 


Mary Logue

Mary Logue,
Department of Biochemistry,
Conway Institute of Biomolecular and Biomedical Research,
University College Dublin,
Dublin 4

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