On p. 25 of the Limma Users' Guide (May 2, 2005), discussing an experiment 
with 2 technical replicates per sample:

corfit<-duplicateCorrelation(MA,ndups=1,block=c(1,1,2,2))

Should that be "ndups=2"?  The resulting correlation for my experiment 
(which is set up just like this) is 0.04 with ndups=0.04 which seems 
unreasonable.  With ndups=2, the correlation is -0.7 which seems more 
reasonable for a dye-swap technical replicate.



Naomi S. Altman                                814-865-3791 (voice)
Associate Professor
Bioinformatics Consulting Center
Dept. of Statistics                              814-863-7114 (fax)
Penn State University                         814-865-1348 (Statistics)
University Park, PA 16802-2111

	[[alternative HTML version deleted]]

