reallocate_units_4: reallocate_units_4

In gtonkinhill/rhierbaps: Clustering Genetic Sequence Data Using the HierBAPS Algorithm

Description

Peform an iteration of the fourth move in the algorithm. That is split cluster into n subclusters and re-allocate one sub-cluster.

Usage

reallocate_units_4(
  snp.object,
  partition,
  threshold = 1e-05,
  min.clust.size = 20,
  split = FALSE,
  n.cores = 1
)

Arguments

snp.object	A snp.object containing the processed SNP data.
partition	An integer vector indicating an initial partition of the isolates.
threshold	The increase in marginal log likelihood required to accept a move.
min.clust.size	Clusters smaller than min.clust.size will not be split.
split	Whether to split only into two clusters (for move type 3).
n.cores	The number of cores to use.

Value

The best partition after splitting a cluster and re-allocating as well as a boolean value indicating whether a move increased the marginal likelihood.

gtonkinhill/rhierbaps documentation built on May 3, 2021, 9:04 p.m.