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github-actions[bot] committed Sep 19, 2024
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Expand Up @@ -8,7 +8,7 @@ First, in a Python script that uses GillesPy2 to perform model simulation, we be
.. code-block:: python
import gillespy2
Next, we define a model. This is a model based on a publication by Gardner et al. in Nature, 1999, and represents a genetic toggle switch in Escherichia coli. In GillesPy2, a model is expressed as an object having the parent class ``Model``. Components of the model, such as the reactions, molecular species, and characteristics such as the time span for simulation, are all defined within the subclass definition. The following Python code represents our model using GillesPy2's facility:

Expand Down Expand Up @@ -77,7 +77,7 @@ And here is a plot of the deterministic simulation results:

.. code-block:: python
d_results.plot(title="Stochastic Switch")
d_results.plot(title="Deterministic Switch")
.. image:: ode.png
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2 changes: 1 addition & 1 deletion docs/build/html/searchindex.js

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Expand Up @@ -160,7 +160,7 @@ <h1>Tutorial: ODE vs. SSA<a class="headerlink" href="#tutorial-ode-vs-ssa" title
</div>
<img alt="../../_images/stochastic.png" class="align-center" src="../../_images/stochastic.png" />
<p>And here is a plot of the deterministic simulation results:</p>
<div class="highlight-python notranslate"><div class="highlight"><pre><span></span><span class="n">d_results</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">title</span><span class="o">=</span><span class="s2">&quot;Stochastic Switch&quot;</span><span class="p">)</span>
<div class="highlight-python notranslate"><div class="highlight"><pre><span></span><span class="n">d_results</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">title</span><span class="o">=</span><span class="s2">&quot;Deterministic Switch&quot;</span><span class="p">)</span>
</pre></div>
</div>
<img alt="../../_images/ode.png" class="align-center" src="../../_images/ode.png" />
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