clustree_viz

clustree_viz() builds a clustering tree displaying changes in haplotype
assignment between individuals or changes in Marker Group assignment for
SNPs, across different epsilon values. This function is a `clustree` wrapper.

A local haplotyping visualization toolbox to capture major patterns
of co-inheritance between clusters of linked variants, whilst connecting findings
to phenotypic and demographic traits across individuals. 'crosshap' enables users
to explore and understand genomic variation across a trait-associated region.
For an example of successful local haplotype analysis, see Marsh et al. (2022)
<doi:10.1007/s00122-022-04045-8>.

Jacob Marsh

crosshap

Local Haplotype Clustering and Visualization

Brady Johnston

Jakob Petereit

clustree_viz function

<dl><dt>HapObject</dt>
<dd>A haplotyping object with a range of results from different
epsilons created by run_haplotyping()</dd>
<dt>type</dt>
<dd>When type = "hap", nodes represent haplotype populations, when
type = "MG", nodes represent marker groups.</dd></dl>

Arguments

Clustering tree — clustree_viz

<dl>

<dt>HapObject</dt>
<dd>A haplotyping object with a range of results from different
epsilons created by run_haplotyping()</dd>


<dt>type</dt>
<dd>When type = "hap", nodes represent haplotype populations, when
type = "MG", nodes represent marker groups.</dd>

</dl>

clustree_viz: Clustering tree

Description

Usage

Value

Arguments