Study whether the hierarchical clustering method is suited for grouping genotypes with markers

[tanghaibao]

Explore the alternative method, for example using STRUCTURE, this is explored in the following paper

http://www.ncbi.nlm.nih.gov/pubmed/21472410
Determination of genetic structure of germplasm collections: are traditional hierarchical clustering methods appropriate for molecular marker data?

In population genetics, STRUCTURE is much more useful than hierarchical clustering. Correlating phenotype information with STRUCTURE results will become emergent problem to solve.

Study this and discuss possible implementations.