.generateColors

Generates a collection of colors for a list of barcodes based on their identified minimum hamming distances.

Provides the necessary functions to identify and extract a selection of already available barcode constructs (Cornils, K. et al. (2014) <doi:10.1093/nar/gku081>) and freely choosable barcode designs from next generation sequence (NGS) data. Furthermore, it offers the possibility to account for sequence errors, the calculation of barcode similarities and provides a variety of visualisation tools (Thielecke, L. et al. (2017) <doi:10.1038/srep43249>).

Lars Thielecke

genBaRcode

Analysis and Visualization Tools for Genetic Barcode Data

.generateColors function

<dl><dt>minHD</dt>
<dd>a numeric vector of all the minimum hamming distances.</dd>
<dt>type</dt>
<dd>a character string. Possible Values are "rainbow", "heat.colors", "topo.colors", "greens", "wild".</dd>
<dt>alpha</dt>
<dd>a numeric value between 0 and 1, modifies colour transparency.</dd></dl>

Arguments

Color list generation — .generateColors

<dl>

<dt>minHD</dt>
<dd>a numeric vector of all the minimum hamming distances.</dd>


<dt>type</dt>
<dd>a character string. Possible Values are "rainbow", "heat.colors", "topo.colors", "greens", "wild".</dd>


<dt>alpha</dt>
<dd>a numeric value between 0 and 1, modifies colour transparency.</dd>

</dl>

.generateColors: Color list generation

Description

Usage

Arguments