Hello listmemebers,
I have data from two-color microarray expression profiling experiments where 3
whole brain (WB) samples were compared to 3 Mauthner Cells (MC) in a loop
design (-> MC #1 -> WB #1 -> MC #2 -> WB #2 -> MC #3 -> WB #3 -> MC #1 ->). In
addition to phenotype analysis I would also like to run an individual analysis
making all pair-wise comparisons. I'm using the LIMMA package in R to do this.
The problem is that the contrast matrix that you have to set up requires that
one of the samples be designated as a reference, but in doing so you lose the
sample. My question is this, is it possible to run individual analysis with
this data set without losing one as a reference point?
Many thanks in advance,
Dmitriy
[[alternative HTML version deleted]]
______________________________________________
R-help@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
