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I am using the K-S test to compare two distributions of proportions in which the order of the categories matters. However, it appears that the order of the proportions is changed when the K-S test compares the two distributions. How can the ordering of the proportion rules be preserved when running the test? Thank you!
This test is appropriate for comparing two continuous distributions.
I suggest you using the multinomial goodness of fit test. You will find an example here.
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