Hi, I've used the Biologists Guide to Using Bioconductor and needed help exporting the data from the M vs. A plots. Can anyone suggest an easy way to get a format such as this in a tab-delimited format: gene [tab] M (unnormalized) [tab] M (normalized) [tab] A (geometric mean of intensity) Also, how can I concatenate data onto the end of this table. As an example, I'd like to export the full gene names instead of just oligo ID's or accession numbers. Thanks.

Mike It depends what package your data is in! For the marray classes, use something like: >my.matrix <- cbind(maGeneTable(rawdata), maM(rawdata), maM(normdata), maA(normdata) >write.table(my.matrix, "/path/to/file.txt", sep="\t") where rawdata holds your Raw Microarray data and normdata holds your normalised data. If your data is in another package, then cbind() will create a matrix out of a series of columns, which can then be written to a file using write.table() Finally, I believe there is a write.exprs() function in Biobase that writes an exprSet object to a file, so if you can coerce your data to one of those, then you're laughing :-D -----Original Message----- From: Mike Schaffer [mailto:mschaff@bu.edu] Sent: 14 September 2003 19:04 To: bioconductor@stat.math.ethz.ch Subject: [BioC] Export M vs A Plot Data Hi, I've used the Biologists Guide to Using Bioconductor and needed help exporting the data from the M vs. A plots. Can anyone suggest an easy way to get a format such as this in a tab-delimited format: gene [tab] M (unnormalized) [tab] M (normalized) [tab] A (geometric mean of intensity) Also, how can I concatenate data onto the end of this table. As an example, I'd like to export the full gene names instead of just oligo ID's or accession numbers. Thanks. _______________________________________________ Bioconductor mailing list Bioconductor@stat.math.ethz.ch https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor