relink

Relink IDs to closest duplicate appearance based on coordinates

internal

Provides plotting functions for visualizing pedigrees and family trees. The package complements a behavior genetics package 'BGmisc' [Garrison et al. (2024) <doi:10.21105/joss.06203>] by rendering pedigrees using the 'ggplot2' framework. Features include support for duplicated individuals, complex mating structures, integration with simulated pedigrees, and layout customization. Due to the impending deprecation of kinship2, version 1.0 incorporates the layout helper functions from kinship2. The pedigree alignment algorithms are adapted from 'kinship2' [Sinnwell et al. (2014) <doi:10.1159/000363105>]. We gratefully acknowledge the original authors: Jason Sinnwell, Terry Therneau, Daniel Schaid, and Elizabeth Atkinson for their foundational work.

S. Mason Garrison

ggpedigree

Visualizing Pedigrees with 'ggplot2' and 'plotly'

relink function

<dl><dt>df</dt>
<dd>A data.frame containing pedigree layout info with columns including:
`x_pos`, `y_pos`, and the target column to relink.</dd>
<dt>col</dt>
<dd>Character; name of the column to relink (e.g., `"momID"`, `dadID"`, `spouseID"`).</dd>
<dt>dup_xy_list</dt>
<dd>A list of data.frames, each containing duplicate appearances
for a specific coreID with columns: `personID`, `x_pos`, `y_pos`, and `total_blue`.</dd>
<dt>dup_xy</dt>
<dd>A data.frame containing all duplicate appearances with columns:
`personID`, `coreID`, `x_pos`, `y_pos`, and `total_blue`.</dd></dl>

Arguments

Relink IDs to closest duplicate appearance based on coordinates — relink

<dl>

<dt>df</dt>
<dd>A data.frame containing pedigree layout info with columns including:
`x_pos`, `y_pos`, and the target column to relink.</dd>


<dt>col</dt>
<dd>Character; name of the column to relink (e.g., `"momID"`, `dadID"`, `spouseID"`).</dd>


<dt>dup_xy_list</dt>
<dd>A list of data.frames, each containing duplicate appearances
for a specific coreID with columns: `personID`, `x_pos`, `y_pos`, and `total_blue`.</dd>


<dt>dup_xy</dt>
<dd>A data.frame containing all duplicate appearances with columns:
`personID`, `coreID`, `x_pos`, `y_pos`, and `total_blue`.</dd>

</dl>

relink: Relink IDs to closest duplicate appearance based on coordinates

Description

Usage

Value

Arguments