On Fri, Sep 17, 2004 at 11:48:02PM -0400, Hao Liu wrote: > Dear All: > > I have a txt file with MAS5 read outs of 201 133A chips, I did it in > windows. I have read it into R and I just wonder how do I make an exprset > from it. (my MAS5 file only contains the signal intensity information, with > probe_sets the leftest column, one sample per column across the whole file). > > I tried using new("exprSet",exprs=myobject,phenoData=***). It won't work. What is ***? You really need to make a phenoData object (which is much of the point of having an exprSet), and you should describe the phenotypes (or other sample level characteristics) in some detail. There are examples of the construction of such objects in the Biobase vignette, and in many of the different course materials available from Bioconductor. > > Thanks for your help > > Hao > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor -- +--------------------------------------------------------------------- ------+ | Robert Gentleman phone : (617) 632-5250 | | Associate Professor fax: (617) 632-2444 | | Department of Biostatistics office: M1B20 | | Harvard School of Public Health email: rgentlem@jimmy.harvard.edu | +--------------------------------------------------------------------- ------+

Hi, I have error in Rgraphviz installation. I have latest graphviz-1.16.tar.gz installed. System: Linux Fedora core 2 - AMD 32 Bit - 512 RAM $ R CMD INSTALL -l /usr/local/lib/R/library Rgraphviz_1.4.0.tar.gz I am getting... -------------------------------------------- * Installing *source* package 'Rgraphviz' ... ** libs gcc -I/usr/local/lib/R/include `dotneato-config --cflags` -I/usr/local/include -D__NO_MATH_INLINES -mieee-fp -Wall -fPIC -g -O2 -c Rgraphviz.c -o Rgraphviz.o In file included from /usr/local/include/graphviz/render.h:45, from common.h:21, from Rgraphviz.c:1: /usr/local/include/graphviz/macros.h:34:1: warning: "NEW" redefined In file included from common.h:13, from Rgraphviz.c:1: /usr/local/lib/R/include/Rdefines.h:129:1: warning: this is the location of the previous definition Rgraphviz.c: In function `Rgraphviz_agopen': Rgraphviz.c:244: warning: implicit declaration of function `GD_gvc' Rgraphviz.c:244: error: invalid lvalue in assignment make: *** [Rgraphviz.o] Error 1 ERROR: compilation failed for package 'Rgraphviz' ** Removing '/usr/local/lib/R/library/Rgraphviz' ------------------- please, let me know if someone has already solved this error. thanks, Saurin