Question: Clumpp For Hierarchical Clustering
1
gravatar for pufferfish
9.2 years ago by
pufferfish260
South Africa
pufferfish260 wrote:

CLUMPP can be used on multiple runs of the Structure software to match up the labels of clusters that correspond to each other, but is it possible to use CLUMPP to match clusters at different K levels?

Obviously there's potential for mistakes, but I can think of scenarios where at K=2 samples are clustered into African vs non-African, and at K=3 the non-African individuals divide into two clusters. This would suggest a hierarchical clustering, wouldn't it?

population structure • 2.4k views
ADD COMMENTlink modified 9.2 years ago by Joseph Hughes2.8k • written 9.2 years ago by pufferfish260
1
gravatar for pufferfish
9.2 years ago by
pufferfish260
South Africa
pufferfish260 wrote:

A naive way might be to take the K=3 run, and merge two arbitrary clusters into one, then see how well the result matches the K=2 run. Could do this pairwise for all possible combinations then choose the best match.

ADD COMMENTlink modified 9.1 years ago • written 9.2 years ago by pufferfish260
1
gravatar for Joseph Hughes
8.8 years ago by
Joseph Hughes2.8k
Scotland, UK
Joseph Hughes2.8k wrote:

This blog post might be of interest. It enables you to visualise the clustering process of your different individuals as you increase the number of samples they are split into.

ADD COMMENTlink written 8.8 years ago by Joseph Hughes2.8k
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