| Class | Description |
|---|---|
| Haplotype |
A Haplotype is a sequence which can be either a true haplotype or a genotype. The natural ordering is by number of non-missing values, descending.
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| HaplotypeCluster |
A HaplotypeCluster is a List of Haplotypes that are all similar. Size and score are alternate methods of measuring cluster importance. For score, Haplotypes are weighted by the number of clusters to which they belong since a Haplotype can belong to more than one cluster. The natural order for clusters is determined by score then by size, both in descending order.
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| HaplotypeClusterer |
HaplotypeClusterer clusters haplotypes by distance as defined in the Haplotype class. This class can be extended to apply different clustering rules.
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