SantosJGND/Galaxy_KDE_classifier: KDE_classifier_DownstreamComplement

Introduces Downstream analysis of the data sets generated in the first layer.

• Association analysis.

Query cluster profiles by local classification of assigned haplotyes and genomic position. Use Kmeans to identify groups of similar clusters. Study group profile, map cluster to haplotype affinity by genomic position (jupyter interactive).

• Distance analysis.

Estimate the distance that separates specific cluster types from other, reference, haplotypes across local windows. Study the distribution of distance measurements to target and reference centroids across windows (jupyter notebook).