how to convert expression set data into matrix data ?
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Anne Sauve ▴ 10
@anne-sauve-396
Last seen 7.1 years ago
Hello, I am trying to convert some expression set data into a matrix format in order to do computations on them. The way I do it now is in 3 steps: write.exprs(B[,14],file="B.txt") B = read.table("B.txt") Bmat = as.matrix(Bmat) where B is an expression set with 15 samples and 12626 genes. Is there a more direct way of doing that conversion ? Thanks for your help, Anne _______________________________________________ Bioconductor mailing list Bioconductor@stat.math.ethz.ch https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor
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@rafael-a-irizarry-205
Last seen 7.1 years ago
yes! the method exprs gives you back the matrix of expressions in an instace of the exprSet class. in you example simply use: Bmat <- exprs(B) On Fri, 1 Aug 2003, Anne Sauve wrote: > Hello, > > I am trying to convert some expression set data into a matrix format > in order to do computations on them. > > The way I do it now is in 3 steps: > > write.exprs(B[,14],file="B.txt") > B = read.table("B.txt") > Bmat = as.matrix(Bmat) > > where B is an expression set with 15 samples and 12626 genes. > > Is there a more direct way of doing that conversion ? > > Thanks for your help, > > Anne > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor >
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@jean-yee-hwa-yang-104
Last seen 7.1 years ago
Hi Anne, Use data <- exprs(B) You will find more information from the Biobase vignettes. Jean On Fri, 1 Aug 2003, Anne Sauve wrote: > Hello, > > I am trying to convert some expression set data into a matrix format > in order to do computations on them. > > The way I do it now is in 3 steps: > > write.exprs(B[,14],file="B.txt") > B = read.table("B.txt") > Bmat = as.matrix(Bmat) > > where B is an expression set with 15 samples and 12626 genes. > > Is there a more direct way of doing that conversion ? > > Thanks for your help, > > Anne > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor >
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