[BioC] Limma with block and replicate measurement
yli at mail.jci.tju.edu
Fri Dec 1 17:52:37 CET 2006
I am doing Random Block Design for single-color arrays, consider the
following target frame:
FileName Exp Trt
1 1 A
2 1 B
3 1 C
4 1 D
5 2 A
6 2 B
7 2 C
8 2 D
9 3 A
10 3 B
11 3 C
12 3 D
Each mRNA has 3 replicates (same y location and different x location), I am
not a biology person, I hope I could express clearly.
Now I want to compare pairwise groups across the 3 experiments, treat Exp
as block factor (random) and each mRNA is repeated.
How to incorporate random and repeated effects to lmFit command and also
Is anyone deal with similar situation or any other suggestions?
I appreciate all your help.
Thanks a lot
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Yanyan Li phone: 215-503-9876, fax: 215-503-3804
Division of Biostatistics
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