I want to compare two groups of samples( G1 and G2) comprising of both biological replicates and technical replicates for these biological replicates. G1 has four biological replicates (BR_1A, BR_1B, BR_1C, BR_1D) and G2 has BR_2A and BR_2B. Each of these biological replicates has three technical replicates eg. for BR_1A has 1a_01, 1a_02,1a_03 etc.
I wish to average these technical replicates for each of the Bio. reps and do a t-test to calculate the fold change significance.
Can someone tell me if this is the correct way to set up the experimental design in Proteome Discoverer 2.2?
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