mergeSimData

Merge a simulation's abundance data, feature metadata, and sample metadata
into one <code>data.table</code>. This function is useful for making plots using
ggplot2.

A tool for simulating rhythmic data: transcriptome data using
Gaussian or negative binomial distributions, and behavioral activity data
using Bernoulli or Poisson distributions. See Singer et al. (2019)
<doi:10.7717/peerj.6985>.

Jake Hughey

simphony

Simulating Large-Scale, Rhythmic Data

Jordan Singer

Darwin Fu

mergeSimData function

<dl><dt>simData</dt>
<dd>List with the following elements, such as returned by
<code>simphony()</code>:<dl>
<dt>abundData</dt>
<dd>Matrix of abundance values, with rownames for features and
colnames for samples.</dd></dl></dd><dt>sampleMetadata</dt>
<dd><code>data.table</code> with columns <code>sample</code> and <code>cond</code>.</dd><dt>featureMetadata</dt>
<dd><code>data.table</code> with columns <code>feature</code> and <code>cond</code>.</dd>
</dl>
<dt>features</dt>
<dd>Character vector of features for which to get abundance data.
If <code>NULL</code>, then all features.</dd>

Arguments

Merge abundance data, feature metadata, and sample metadata — mergeSimData

<dl>

<dt>simData</dt>
<dd>List with the following elements, such as returned by
<code>simphony()</code>:<dl>
<dt>abundData</dt>
<dd>Matrix of abundance values, with rownames for features and
colnames for samples.</dd>

<dt>sampleMetadata</dt>
<dd><code>data.table</code> with columns <code>sample</code> and <code>cond</code>.</dd>

<dt>featureMetadata</dt>
<dd><code>data.table</code> with columns <code>feature</code> and <code>cond</code>.</dd>


</dl></dd>


<dt>features</dt>
<dd>Character vector of features for which to get abundance data.
If <code>NULL</code>, then all features.</dd>

</dl>

mergeSimData: Merge abundance data, feature metadata, and sample metadata

Description

Usage

Value

Arguments

See Also

Examples