Sorry that this question is more generically related to classification problem instead of R problem, but it is microarray classification. 

For binary classification problem in microarray, if you do some random subsampling classification (every time split data into 80% training and 20% test with stratification (perserving the ratio in each class), repeat many times). When you get some results, one thing you would normally look at is how significantly different is your results from what you are going to get by chance, that's why people do label permutation test. My question is that: Are the final results of label permutation test for accuracy equal to the proportion of the large class (say there are 80 normal vs. 20 disease, is the mean accuracy of label permutation test equal to 80/(80+20) as long as you repeat enough times? Is this classifier independent? 

Thanks a lot!

James

       
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