[BioC] data export from LIMMA

michael watson (IAH-C) michael.watson at bbsrc.ac.uk
Mon Jun 7 21:52:17 CEST 2004

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 at uoneuro.uoregon.edu] 
	Sent: Mon 07/06/2004 20:50 
	To: bioconductor at stat.math.ethz.ch 
	Subject: [BioC] data export from LIMMA

	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.
	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.
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