In this video we present the general concept of a Permutation Test in Statistics. Permutation tests also get referred to as “Exact Hypothesis Tests”, and serve as an alternative approach to large-sample parametric approaches. Like to support us? You can Donate (bit.ly/2CWxnP2), Share our Videos, Leave us a Comment and Give us a Thumbs up! Either way We Thank You!
Thank you. So the only thing differ from this to bootstrap is that permutation is without replacement and bootstrap is with replacement? Both are resampling from the joined pool of both meatmeal and casein since both resampling are done to project the distribution from the sample data if the Null Hypothesis is true?
There is a transparent screen in front of him. He writes normally on it with something like a whiteboard marker. The video is flipped left to right so the text is reversed. You may notice his shirt buttons are on the wrong side and he appears left handed. Flipped video.
Nice video! I was just wondering how one can construct the confidence interval for a permutation test? If I have calculated the pseudo- F-statistic using PERMANOVA, is there a way I can generate confidence intervals for it?
@@bozhou1454 The Confidence Interval needs to preserve the relationship/dependency between the Weight and Diets, but in Permutation Test we nullify it, make them independent. Now i know you gonna ask if we did permutation per group, instead of the whole data, well that's just re-shuffling the original question, doesn't change anything :))))
Thank you for your comprehensible explanation! I'm a little confused by the number of permutations. I read that you should take all possible combinations, meaning in your example 9 over 4 = 126 permutations. What's the difference to 10^4 permutations? Why would one do that if it doesn't give you any more information than 126 permutations?
Thanks for that question, I was also wondering about that. In the video total number of permutation of both groups together is used, which gives you individual ordering of all 9 observations, but then you have in the data set also some redundant numbers which don't improve the information. So make sense to use only the individual ordering - and as you mentioned that would be 126 permutations. So I probably missing some peace of information to make sense of it. Other sources seem to be a bit inconsistent and sometimes I see this approach - as in video and sometimes the one r.a.w. was suggesting. But perhaps that is always dependent on how we state the hypothesis and test statistics, and that's why it is individual to particular scenario. Also I don't quite understand why would we talk in the second case about permutations, when the formula is a formula for combination with no repetition = n!/r! x (n-r)!. I would appreciate if someone could correct me or provide some hint, as I'm surely missing something. But otherwise the video is great, thanks a lot!
Interesting but how can TS1 have different values after permutation, regarding that Yc and Ym are always the same, unless when you do the permutation you consider the diet being different ?
Because under H0 you are assuming that weight is not related to the feed type, and so you are assuming that observations from one group are as likely to be from the other group. So you permute all observations across all the groups. Imagine the data in the standard set up where you have one column for group (feed type) and another column for weight. You keep the groups/labels of feed type fixed, and then you look at all permutations of the weight column. You always have the same observed weights, but the group they end up in changes. Hope that makes sense.
thanks! yes, we plan to keep on making videos. with school back on, things are a bit busy with the courses I'm teaching, but we do have a few things in the works and hope to be releasing more videos as soon as we can
the general guideline is less than 5% is statistically significant....although it is good to not be so rigid in a decision with the p-value. id recommend searching and reading the "American Statistical Association Statement on P-values". it was written a few years back now, but has a great discussion on the use (and misuse) of p-values
@@marinstatlectures I understood the same way, small p-val indicates its significance. From your tutorial, I knew how to calculate p-val and the value based on the example is 0. What would you say from this p-val related to the experiment in your example? In this case, p-val is 0 and statistically significant. Does it mean that these two diets give different results? To me, p-val = 0 in this example that there is no significant difference between M and C. I ran a script and choose permutation, P, up to 10000 and I got the p-val is around 0.3-0.5.
Thank you for the detailed explanation, really helpful! I just wish I can hear your voice better, at times it is difficult to hear the words clearly and I had my volume up at 100%
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In this video we present the general concept of a Permutation Test in Statistics. Permutation tests also get referred to as “Exact Hypothesis Tests”, and serve as an alternative approach to large-sample parametric approaches. Like to support us? You can Donate (bit.ly/2CWxnP2), Share our Videos, Leave us a Comment and Give us a Thumbs up! Either way We Thank You!
How to do permutation in R for a regression test
Wait..What..My lecturer taught this in class. I didn't get it. Miraculously you guys uploaded one I can comprehend..Thanks!!!!!!!!!!!!!!
You’re welcome, glad we could help out :)
Amazing lecture! Great and clear examples! Thank you very much!
Very clear and helpful STEP by STEP video for learning statistical concepts. Thank you for making such high-quality video!
This was a better explanation than my grad-school level class on the subject. Thank you, SO much!!!
I’ve created these for the grad courses I teach :)
@@marinstatlectures They are excellent! Thank you so much for sharing the resource, it will go a long way for so many!
I wish you were my professor for the statistics lecture during my Bachelor course.
Can you explain when would we prefer this over the normal Bootstrap approach? Thank you in advance
Marin, your videos are always top notch.
Thanks!
Thank you! It is very clear
Thank you.
So the only thing differ from this to bootstrap is that permutation is without replacement and bootstrap is with replacement?
Both are resampling from the joined pool of both meatmeal and casein since both resampling are done to project the distribution from the sample data if the Null Hypothesis is true?
Very well explained, thank you!
Brilliant. Thank you for sharing your knowledge with us!
So clear and easy to understand! Thank you!
So no one is gonna talk about how he's writing the script backward ?
speechless
He doesn't. The video is flipped...
There is a transparent screen in front of him. He writes normally on it with something like a whiteboard marker. The video is flipped left to right so the text is reversed. You may notice his shirt buttons are on the wrong side and he appears left handed. Flipped video.
Really clear video! Thanks!
Can you do a permutation test with skewness?
thank you! finally an easy to grasp explanation :)
Thank for the video! I have a question please : can we apply the permutation test for dependent samples?
Brilliant.
thank you!
Very helping video thank you so much
thank you very much, it really helps a lot!
You’re welcome
You're awesome :)
Nice video!
I was just wondering how one can construct the confidence interval for a permutation test?
If I have calculated the pseudo- F-statistic using PERMANOVA, is there a way I can generate confidence intervals for it?
he says in the video how you cannot calculate CIs
@@froggomcfroggin9392 any idea on why?
@@bozhou1454 The Confidence Interval needs to preserve the relationship/dependency between the Weight and Diets, but in Permutation Test we nullify it, make them independent. Now i know you gonna ask if we did permutation per group, instead of the whole data, well that's just re-shuffling the original question, doesn't change anything :))))
Thanks!!
Why is not possible to calculate the confidence interval using this approach but it's possible using the bootstrap approach?
Hi! Why do we use a one-tailed test and not a two-tailed test?
Can we build the confidence interval like what we did in bootstrap method.
why does the difference in means need to be absolute value, considering the distributions of the mean difference should be normal ?
Thank you for your comprehensible explanation! I'm a little confused by the number of permutations. I read that you should take all possible combinations, meaning in your example 9 over 4 = 126 permutations. What's the difference to 10^4 permutations? Why would one do that if it doesn't give you any more information than 126 permutations?
Thanks for that question, I was also wondering about that. In the video total number of permutation of both groups together is used, which gives you individual ordering of all 9 observations, but then you have in the data set also some redundant numbers which don't improve the information. So make sense to use only the individual ordering - and as you mentioned that would be 126 permutations. So I probably missing some peace of information to make sense of it. Other sources seem to be a bit inconsistent and sometimes I see this approach - as in video and sometimes the one r.a.w. was suggesting. But perhaps that is always dependent on how we state the hypothesis and test statistics, and that's why it is individual to particular scenario. Also I don't quite understand why would we talk in the second case about permutations, when the formula is a formula for combination with no repetition = n!/r! x (n-r)!. I would appreciate if someone could correct me or provide some hint, as I'm surely missing something. But otherwise the video is great, thanks a lot!
@@petraborovska7266 I have the same question ! Did you able to find an answer Petra ?
If we got Ts 40 in our 3rd test what is the pnvalue
Interesting but how can TS1 have different values after permutation, regarding that Yc and Ym are always the same, unless when you do the permutation you consider the diet being different ?
Because under H0 you are assuming that weight is not related to the feed type, and so you are assuming that observations from one group are as likely to be from the other group. So you permute all observations across all the groups. Imagine the data in the standard set up where you have one column for group (feed type) and another column for weight. You keep the groups/labels of feed type fixed, and then you look at all permutations of the weight column. You always have the same observed weights, but the group they end up in changes.
Hope that makes sense.
@@marinstatlectures ok thank you very much !
Sir, what is the p value here
I don't understand the final steps
So, the main difference to the bootstrap method is that one uses sampling with replacement and the other doesn't, right?
I think so... But apparently, this will allow us to build up hypothesis based on "complex" test statistics. That's what I understood
Hi your videos are amazing would continue doing them?
thanks! yes, we plan to keep on making videos. with school back on, things are a bit busy with the courses I'm teaching, but we do have a few things in the works and hope to be releasing more videos as soon as we can
can this P-value be called empirical p-value?
I believe the number of permutations should be 9!/(4!)(5!) and not 9! for the difference..
Please reply..
how much the p-value should be equal so we can say its statisticly significant ??
the general guideline is less than 5% is statistically significant....although it is good to not be so rigid in a decision with the p-value. id recommend searching and reading the "American Statistical Association Statement on P-values". it was written a few years back now, but has a great discussion on the use (and misuse) of p-values
@@marinstatlectures thank you for your help i appreciate that
@@marinstatlectures I understood the same way, small p-val indicates its significance. From your tutorial, I knew how to calculate p-val and the value based on the example is 0. What would you say from this p-val related to the experiment in your example? In this case, p-val is 0 and statistically significant. Does it mean that these two diets give different results? To me, p-val = 0 in this example that there is no significant difference between M and C. I ran a script and choose permutation, P, up to 10000 and I got the p-val is around 0.3-0.5.
Thank you for the detailed explanation, really helpful! I just wish I can hear your voice better, at times it is difficult to hear the words clearly and I had my volume up at 100%
Or maybe number of permutations should be 2^9? I dont think so
Like 9!/4!5! Better