ggCountHeatmap

The 'TopDom' method identifies topological domains in genomes from Hi-C sequence data (Shin et al., 2016 <doi:10.1093/nar/gkv1505>). The authors published an implementation of their method as an R script (two different versions; also available in this package). This package originates from those original 'TopDom' R scripts and provides help pages adopted from the original 'TopDom' PDF documentation. It also provides a small number of bug fixes to the original code.

Henrik Bengtsson

TopDom

An Efficient and Deterministic Method for Identifying
Topological Domains in Genomes

Hanjun Shin

Harris Lazaris

Gangqing Hu

Xianghong Zhou

ggCountHeatmap function

<dl><dt>data</dt>
<dd>A TopDomData object.</dd>
<dt>transform</dt>
<dd>A function applied to the counts prior to generating
heatmap colors.</dd>
<dt>colors</dt>
<dd>A named list to control to color scale.</dd>
<dt>...</dt>
<dd>Not used.</dd></dl>

Arguments

Author

Produce a Count Heatmap — ggCountHeatmap

<dl>

<dt>data</dt>
<dd>A TopDomData object.</dd>


<dt>transform</dt>
<dd>A function applied to the counts prior to generating
heatmap colors.</dd>


<dt>colors</dt>
<dd>A named list to control to color scale.</dd>


<dt>...</dt>
<dd>Not used.</dd>

</dl>

Produce a Count Heatmap

ggCountHeatmap: Produce a Count Heatmap

Description

Usage

Value

Arguments

Author

See Also