makeDend

A hapMat object with ordered columns according to the ancestry of SNVs.

hapmat

A separator for haplotype names in the same clade. See the arguments in
<code><a rd-options="" href="/link/reconstructPP?package=perfectphyloR&version=0.2.1" data-mini-rdoc="perfectphyloR::reconstructPP">reconstructPP</a></code>

This function recursively partitions a hapMat object with SNVs ordered by ancestry, and records the
partitioning in a <code>phylo</code> object.

internal

Reconstructs perfect phylogeny at a user-given focal point and to depict and test association in a genomic region based on the reconstructed partitions. Charith B Karunarathna and Jinko Graham (2019) <bioRxiv:10.1101/674523>.

Charith Karunarathna

perfectphyloR

Reconstruct Perfect Phylogenies from DNA Sequence Data

makeDend function

A separator for haplotype names in the same clade. See the arguments in
<code><a rd-options='' href='reconstructPP'>reconstructPP</a></code>

makeDend: Recursive partitioning of sequences at a focal point.

Description

Usage

Arguments

Value

Examples