psth-to-population/index.html at master · mobeets/psth-to-population · GitHub

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<!DOCTYPE html>
<html xmlns="http://www.w3.org/1999/xhtml"
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    <meta name="description" content="visualize how the psth of three neurons produces population activity">
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    <title>Visualizing neural population activity</title>

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          <p class="navbar-text">Visualizing neural population activity</p>
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        <h1>Visualizing neural population activity</h1>
        <div class="row">
          <div class="col-md-4"></div>
          <p class="lead col-md-4">View the time-varying activity of three neurons in population space</p>
        </div>
        <div class="row">
          <h3>From neuron to population</h3>
          <p style="text-align: left;">
            Traditionally, when we want to assess how a single neuron responds to a stimulus, we can plot its PSTH, or its average firing rate over time. However, neurons don't act in isolation, so it's important to think about how these PSTHs look across a population of multiple neurons. One way to view this so-called "population activity" is to plot the firing rate of each neuron on its own axis. (If you have more than three neurons, you could first apply a dimensionality reduction technique like PCA and plot the activity of the first three prinicipal components.)
          </p>
          <p style="text-align: left;">
            Visualizing population activity can reveal interesting geometries that aren't obvious just from the PSTHs of individual neurons. You can play around with the parameters of three neurons' PSTHs below and see how the resulting population picture changes. Click the buttons for presets to make the activity look like a <span class="snowflake psth-preset">snowflake</span>, a <span class="spider psth-preset">spider</span>, a <span class="gramophone psth-preset">gramophone</span>, or a <span class="head-massager psth-preset">head massager</span>. Click and drag the 3D plot to change the perspective. An explanation of the parameters is at the bottom of the page.
          </p>
        </div>
        <!-- r(t, \theta) &= \max\left[0, r_{spont} +  r_{evoked}(t, \theta) \right]\\
r_{evoked}(t, \theta) &= g_{\tau_1}(t)*r_{generic} + g_{\tau_2}(t)*r_{stim}*\cos(\theta - \theta_{pref}) -->
        <!-- 1. Make presets into buttons -->
        <!-- 2. Add parameter values to controls -->
        <!-- 3. Organize parameters better (especially with wide screen) -->
        <!-- 4. Add actual neural data example images below -->

      	<div class="container">
        <div class="row">
          <!-- <div id="graph"></div> -->
          <!-- <div id="psths"></div> -->
        </div>
        <div class="row">
          <div class="col-md-6"><div id="graph"></div></div>
          <div class="col-md-6"><div id="psths"></div></div>
        </div>
        <div class="row btn-metagroup">
          <!-- <div class="col-md-2"></div> -->
          <div class="col-md-12">
          <div class="btn-group mr-2 btn-slider" role="group" aria-label="Second group">
            <div class="slider-container">
                Neuron 1<br>θ_pref: <span id="value-thetapref-1"></span><input type="range" min="0" max="7" value="0" class="slider" id="slider-thetapref-1">
            </div>
          </div>
          <div class="btn-group mr-2 btn-slider" role="group" aria-label="Second group">
            <div class="slider-container">
                Neuron 2<br>θ_pref: <span id="value-thetapref-2"></span><input type="range" min="0" max="7" value="0" class="slider" id="slider-thetapref-2">
            </div>
          </div>
          <div class="btn-group mr-2 btn-slider" role="group" aria-label="Second group">
            <div class="slider-container">
                Neuron 3<br>θ_pref: <span id="value-thetapref-3"></span><input type="range" min="0" max="7" value="0" class="slider" id="slider-thetapref-3">
            </div>
          </div>
        	<div class="btn-group mr-2 btn-slider" role="group" aria-label="Second group">
              <div class="slider-container">
              Spontaneous rate<br>(r_spont): <span id="value-r-spont"></span><input type="range" min="0" max="9" value="0" class="slider" id="slider-a">
              </div>
          </div>
          <div class="btn-group mr-2 btn-slider" role="group" aria-label="Second group">
              <div class="slider-container">
              Generic evoked rate<br>(r_generic): <span id="value-r-generic"></span><input type="range" min="0" max="9" value="0" class="slider" id="slider-ci">
              </div>
          </div>
          <div class="btn-group mr-2 btn-slider" role="group" aria-label="Second group">
              <div class="slider-container">
              Generic time const.<br>(τ_1): <span id="value-tau-generic"></span><input type="range" min="1" max="12" value="1" class="slider" id="slider-ci-tau">
              </div>
          </div>
          <div class="btn-group mr-2 btn-slider" role="group" aria-label="Second group">
              <div class="slider-container">
              Stimulus gain<br>(r_stim): <span id="value-r-stim"></span><input type="range" min="0" max="9" value="0" class="slider" id="slider-b">
              </div>
          </div>
          <div class="btn-group mr-2 btn-slider" role="group" aria-label="Second group">
              <div class="slider-container">
              Stimulus time const.<br>(τ_2): <span id="value-tau-stim"></span><input type="range" min="1" max="12" value="1" class="slider" id="slider-tau">
              </div>
          </div>
          <div class="btn-group mr-2 btn-slider" role="group" aria-label="Second group">
            <div class="slider-container">
                Viewing PSTH<br>for: <span id="value-stim-index"></span><input type="range" min="0" max="7" value="0" class="slider" id="slider-stim-index">
            </div>
          </div>
          <div class="btn-group mr-2" role="group" aria-label="Third group">
              <button type="button" class="btn btn-preset btn-outline-secondary snowflake">Snowflake</button>
          </div>
          <div class="btn-group mr-2" role="group" aria-label="Third group">
              <button type="button" class="btn btn-preset btn-outline-secondary spider">Spider</button>
          </div>
          <div class="btn-group mr-2" role="group" aria-label="Third group">
              <button type="button" class="btn btn-preset btn-outline-secondary gramophone">Gramophone</button>
          </div>
          <div class="btn-group mr-2" role="group" aria-label="Third group">
              <button type="button" class="btn btn-preset btn-outline-secondary head-massager">Head massager</button>
          </div>
         </div>
         </div>
         <br>
        <div class="row btn-metagroup">
         </div>
         <div class="row">
          <!-- <div id="graph"></div> -->
          <!-- <div id="psths"></div> -->
        </div>
        <div class="row">
          <h3>Modeling assumptions</h3>
          <p style="text-align: left;">
            Above, each neuron's time-varying firing rate (or PSTH) in response to a stimulus θ is modeled as:
          </p>
          <p style="text-align: left;">
            <img src="static/eqns2.png" height="50"/>
          </p>
          <p style="text-align: left;">
            The idea is that when a stimulus (θ) is shown, a neuron's firing rate gradually increases from spontaneous firing (r_spont) to evoked firing (r_evoked). The evoked firing has two components: a generic, untuned response (r_generic), and a cosine-tuned response (r_stim). Above, g_τ1(t) and g_τ1(t) are gain terms that ramp up from 0 to 1, so that τ_1 and τ_2 control how quickly the firing rate responds to the stimulus.
          </p>
          <p style="text-align: left;">
            Each neuron has its own preferred stimulus (θ_pref): <span id="stimpref1">45</span>º, <span id="stimpref2">135</span>º, and <span id="stimpref3">180</span>º, respectively. You can change these preferred stimuli as well as the other PSTH parameters with the controls above.
          </p>
        </div>
        <div class="row">
          <h3>Actual neural data</h3>
          <p style="text-align: left;">
            Coming soon.
          </p>
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