Hello, Can anyone tell me how to export data objects, like say MA$M in LIMMA to a tab delimited text file with gene identifiers etc? It would be nice to be able to prepare figures etc from the same data set used for LM and empirical Bayes. Thanks -Dennis p.s. I'm using Bioconductor release 1.3 and R v. 1.8.1. on Debian Linux distro kernel 2.6.4. I'm not sure about LIMMA... 1.7 maybe? I last updated it in December '03.

Hi Dennis Your gene identifiers (hopfully) are in the $genes slot of both your MA and RG objects. Try: > MA$genes To see if they are. To export data from limma, use write.table(). Something like: > write.table(cbind(MA$genes,MA$M), "mydata.txt", row.names=FALSE, sep="\t", quote="\"", header=TRUE) -----Original Message----- From: Dennis Hazelett [mailto:hazelett@uoneuro.uoregon.edu] Sent: Mon 07/06/2004 20:50 To: bioconductor@stat.math.ethz.ch Cc: Subject: [BioC] data export from LIMMA Hello, Can anyone tell me how to export data objects, like say MA$M in LIMMA to a tab delimited text file with gene identifiers etc? It would be nice to be able to prepare figures etc from the same data set used for LM and empirical Bayes. Thanks -Dennis p.s. I'm using Bioconductor release 1.3 and R v. 1.8.1. on Debian Linux distro kernel 2.6.4. I'm not sure about LIMMA... 1.7 maybe? I last updated it in December '03. _______________________________________________ Bioconductor mailing list Bioconductor@stat.math.ethz.ch https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor