-
Notifications
You must be signed in to change notification settings - Fork 6
Estimate the best K #4
Comments
I also think an interesting possibility would be to pool results from various tools here. Not exactly sure how to go about this at this stage. |
clumpak does something like that, although I haven't looked at it yet |
for admixture is this the change point in the CV graph? |
I think we can close this now, unless we want to put something in for Admixture? |
looks good. i'll add something in for admixture before closing that uses admixtures cross-validation method to select the min. |
I've added in admixture CV graph. Also throws error if the user hasn't added a log file. With the repeated runs for STRUCTURE would it be possible to do something akin to https://en.wikipedia.org/wiki/Wilcoxon_signed-rank_test for model selection? Also I don't know how mathematically sound this would be... but if you're doing repeated structure runs kinda akin to doing a 'bootstrap' like procedure ---> could do likelihood ratio tests? |
A function that runs the method of Evanno and plots ln(Pr(X|K) values in order to identify the k for which Pr(K=k) is highest (as described in STRUCTURE's manual, section 5.1)
The text was updated successfully, but these errors were encountered: