calc_distance

Distance calculations for spatial coord

Iterate and repel visually similar colors away in various 'ggplot2' plots. When many groups are plotted at the same time on multiple axes, for instance stacked bars or scatter plots, effectively ordering colors becomes difficult. This tool iterates through color combinations to find the best solution to maximize visual distinctness of nearby groups, so plots are more friendly toward colorblind users. This is achieved by two distance measurements, distance between groups within the plot, and CIELAB color space distances between colors as described in Carter et al., (2018) <doi:10.25039/TR.015.2018>.

Rui Fu

colorrepel

Repel Visually Similar Colors for Colorblind Users in Various
Plots

calc_distance function

<dl><dt>coord</dt>
<dd>dataframe or matrix of spatial coordinates, cell barcode as rownames</dd>
<dt>metadata</dt>
<dd>data.frame or vector containing cluster assignments per cell.
Order must match column order in supplied matrix. If a data.frame
provide the cluster_col parameters.</dd>
<dt>cluster_col</dt>
<dd>column in metadata with cluster number</dd>
<dt>collapse_to_cluster</dt>
<dd>instead of reporting min distance to cluster per cell, summarize to cluster level</dd></dl>

Arguments

Distance calculations for spatial coord — calc_distance

<dl>

<dt>coord</dt>
<dd>dataframe or matrix of spatial coordinates, cell barcode as rownames</dd>


<dt>metadata</dt>
<dd>data.frame or vector containing cluster assignments per cell.
Order must match column order in supplied matrix. If a data.frame
provide the cluster_col parameters.</dd>


<dt>cluster_col</dt>
<dd>column in metadata with cluster number</dd>


<dt>collapse_to_cluster</dt>
<dd>instead of reporting min distance to cluster per cell, summarize to cluster level</dd>

</dl>

calc_distance: Distance calculations for spatial coord

Description

Usage

Value

Arguments