Contrast matrix for paired samples in limma
I would ask a question for analysis of paired sample in limma. Suppose I have a manifest file such like this:
id group
1 A
1 B
1 C
2 A
2 B
2 C
3 A
3 B
3 C
My question is what a correct design and contrast matrix for a paired comparison between A vs B will look like if I were using limma package.
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starick.marick •
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ddzhangzz
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I am also interested in this same setup. It appears to be similar to a paired t-test example. Can anyone comment as to what the correct setup would be? Thanks.
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