makePartition: Recursively partition haplotype matrix
In perfectphyloR: Reconstruct Perfect Phylogenies from DNA Sequence Data

Description Usage Arguments Details Value See Also Examples

View source: R/make_dend_utility_functions.R

This function recursively partitions the SNVs in the window around the focal SNV.

1	makePartition(hapmat, splitSNV)

`hapmat`	A hapMat object with SNVs ordered according to ancestry.
`splitSNV`	The index of the SNV where the haplotype matrix from `orderSNVs` is partitioned.

This function makes two clades based on splotSNV. For each partition, update splitSNV and use it to define subclades. Then, continue recursive partitioning until each partition has only one haplotype, or there are no more SNVs to consider.

A nested partition of haplotypes, implemented as a list of nodes, each with two child nodes.

makeDend, newNode, noVariation