Please add rng function just before cvpartition to set seed of the random number generation. Here is an simple example:
n = 10000;
k = 5;
seed = 100;
rng(seed);
c1 = cvpartition(n,'KFold',k);
rng(seed);
c2 = cvpartition(n,'KFold',k);
Then, c1 and c2 becomes the same.
>> isequal(c1,c2)
ans =
logical
1
But, to partition a set of training data the same way over different iterations, you may not need to set the seed for each iteration, like:
c0 = cvpartition(n,'KFold',k);
for Iteration = 1:M
for kk = 1:5
trainSet = Data(c0.training(kk),:);
testSet = Data(c0.test(kk),:);
... (Some process for each train/test dataset)
end
... (Some process for each iteration)
end