diff --git a/Hardware Guide/Headstages/tether-voltage.html b/Hardware Guide/Headstages/tether-voltage.html
index 58eaae77..c6ed3eb6 100644
--- a/Hardware Guide/Headstages/tether-voltage.html	
+++ b/Hardware Guide/Headstages/tether-voltage.html	
@@ -506,7 +506,7 @@ <h2>Setting Headstage Voltage<a class="headerlink" href="#setting-headstage-volt
 below the level it needs to function properly.</p>
 <div class="admonition attention">
 <p class="admonition-title">Attention</p>
-<p>The <a class="reference internal" href="../../Software%20Guide/OpenEphys.Onix1/index.html#openephys-onix1ref"><span class="std std-ref">OpenEphys.Onix1</span></a> Bonsai package automatically sets the
+<p>The <a class="reference internal" href="../../Software%20Guide/OpenEphys.Onix1/index.html#openephys-onix1ref"><span class="std std-ref">Bonsai package</span></a> automatically sets the
 headstage port voltage by default, but allows the user to override the
 voltage setting as well. The documentation linked shows how to use this
 functionality and what valid voltage ranges are for each headstage. This
diff --git a/Hardware Guide/Miniscopes/index.html b/Hardware Guide/Miniscopes/index.html
index bc358a56..4d45c0d2 100644
--- a/Hardware Guide/Miniscopes/index.html	
+++ b/Hardware Guide/Miniscopes/index.html	
@@ -501,7 +501,7 @@ <h2>UCLA Miniscope V3<a class="headerlink" href="#ucla-miniscope-v3" title="Link
 <dd class="field-odd"><p><a class="reference internal" href="../PCIe%20Host/index.html#pcie-host"><span class="std std-ref">PCIe Host</span></a>, <a class="reference internal" href="../Breakout%20Board/index.html#breakout"><span class="std std-ref">Breakout Board</span></a></p>
 </dd>
 <dt class="field-even">Software<span class="colon">:</span></dt>
-<dd class="field-even"><p><a class="reference internal" href="../../Software%20Guide/OpenEphys.Onix1/index.html#openephys-onix1ref"><span class="std std-ref">OpenEphys.Onix1</span></a> Bonsai package</p>
+<dd class="field-even"><p><a class="reference internal" href="../../Software%20Guide/OpenEphys.Onix1/index.html#openephys-onix1ref"><span class="std std-ref">Bonsai ONIX Package</span></a></p>
 </dd>
 </dl>
 <figure class="align-center">
@@ -521,7 +521,7 @@ <h2>UCLA Miniscope V4<a class="headerlink" href="#ucla-miniscope-v4" title="Link
 <dd class="field-odd"><p><a class="reference internal" href="../PCIe%20Host/index.html#pcie-host"><span class="std std-ref">PCIe Host</span></a>, <a class="reference internal" href="../Breakout%20Board/index.html#breakout"><span class="std std-ref">Breakout Board</span></a></p>
 </dd>
 <dt class="field-even">Software<span class="colon">:</span></dt>
-<dd class="field-even"><p><a class="reference internal" href="../../Software%20Guide/OpenEphys.Onix1/index.html#openephys-onix1ref"><span class="std std-ref">OpenEphys.Onix1</span></a> Bonsai package</p>
+<dd class="field-even"><p><a class="reference internal" href="../../Software%20Guide/OpenEphys.Onix1/index.html#openephys-onix1ref"><span class="std std-ref">Bonsai ONIX Package</span></a></p>
 </dd>
 </dl>
 <figure class="align-center">
diff --git a/Hardware Guide/PCIe Host/setup-windows.html b/Hardware Guide/PCIe Host/setup-windows.html
index d791f056..0cfd69e8 100644
--- a/Hardware Guide/PCIe Host/setup-windows.html	
+++ b/Hardware Guide/PCIe Host/setup-windows.html	
@@ -614,9 +614,7 @@ <h2>Install Device Driver<a class="headerlink" href="#install-device-driver" tit
 </section>
 <section id="install-software">
 <h2>Install Software<a class="headerlink" href="#install-software" title="Link to this heading">#</a></h2>
-<p>Have a look at the <a class="reference internal" href="../../Software%20Guide/index.html#software-guide"><span class="std std-ref"> Software Guide</span></a> page for open-source software options. We
-recommend using <a class="reference internal" href="../../Software%20Guide/OpenEphys.Onix1/index.html#bonsairef"><span class="std std-ref">Bonsai</span></a> and the <a class="reference internal" href="../../Software%20Guide/OpenEphys.Onix1/index.html#openephys-onix1ref"><span class="std std-ref">OpenEphys.Onix1</span></a> Bonsai package because it provides first class
-support for all ONIX hardware features.</p>
+<p>Have a look at the <a class="reference internal" href="../../Software%20Guide/index.html#software-guide"><span class="std std-ref"> Software Guide</span></a> page for software options.</p>
 </section>
 </section>
 
diff --git a/Resources/faq.html b/Resources/faq.html
index a6545c94..a530ef25 100644
--- a/Resources/faq.html
+++ b/Resources/faq.html
@@ -457,7 +457,7 @@
 SPI-based headstages. Have a look at <a class="reference internal" href="../Hardware%20Guide/Headstages/serialization.html#serialization"><span class="std std-ref">Coaxial Data Serialization &amp; Power</span></a> for more
 information on why.</p>
 </dd>
-<dt id="term-Why-is-there-no-Open-Ephys-GUI-plugin-for-ONIX-hardware">Why is there no Open Ephys GUI plugin for ONIX hardware?<a class="headerlink" href="#term-Why-is-there-no-Open-Ephys-GUI-plugin-for-ONIX-hardware" title="Link to this term">#</a></dt><dd><p>Have a look at the <a class="reference internal" href="../Software%20Guide/Open%20Ephys%20GUI/index.html#open-ephys-gui"><span class="std std-ref">Open Ephys GUI</span></a> page.</p>
+<dt id="term-Why-is-there-no-Open-Ephys-GUI-plugin-for-ONIX-hardware">Why is there no Open Ephys GUI plugin for ONIX hardware?<a class="headerlink" href="#term-Why-is-there-no-Open-Ephys-GUI-plugin-for-ONIX-hardware" title="Link to this term">#</a></dt><dd><p>Have a look at the <a class="reference internal" href="../Software%20Guide/Open%20Ephys%20GUI/index.html#open-ephys-gui"><span class="std std-ref">Open Ephys GUI ONIX Plugin</span></a> page.</p>
 </dd>
 <dt id="term-I-have-existing-acquisition-hardware.-Can-I-can-use-your-API-and-software-to-acquire-data-from-it">I have existing acquisition hardware. Can I can use your API and software to acquire data from it?<a class="headerlink" href="#term-I-have-existing-acquisition-hardware.-Can-I-can-use-your-API-and-software-to-acquire-data-from-it" title="Link to this term">#</a></dt><dd><p>Yes. We tried to design our API so that it decouples hardware details
 from software in a generic way. Have a look at the
diff --git a/Software Guide/Bonsai.ONIX/Bonsai Examples/CameraSync.html b/Software Guide/Bonsai.ONIX/Bonsai Examples/CameraSync.html
index 8c788f54..7b64a8b5 100644
--- a/Software Guide/Bonsai.ONIX/Bonsai Examples/CameraSync.html	
+++ b/Software Guide/Bonsai.ONIX/Bonsai Examples/CameraSync.html	
@@ -365,10 +365,10 @@
      aria-label="Section Navigation">
   <p class="bd-links__title" role="heading" aria-level="1">Section Navigation</p>
   <div class="bd-toc-item navbar-nav"><ul class="current nav bd-sidenav">
-<li class="toctree-l1"><a class="reference internal" href="../../OpenEphys.Onix1/index.html">Bonsai</a></li>
-<li class="toctree-l1"><a class="reference internal" href="../../Open%20Ephys%20GUI/index.html">Open Ephys GUI</a></li>
-<li class="toctree-l1 has-children"><a class="reference internal" href="../../oni-repl/index.html">oni-repl</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
-<li class="toctree-l2"><a class="reference internal" href="../../oni-repl/usage.html">Usage</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../../OpenEphys.Onix1/index.html">Bonsai ONIX Package</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../../Open%20Ephys%20GUI/index.html">Open Ephys GUI ONIX Plugin</a></li>
+<li class="toctree-l1 has-children"><a class="reference internal" href="../../oni-repl/index.html">Command Line Application</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
+<li class="toctree-l2"><a class="reference internal" href="../../oni-repl/usage.html"><code class="docutils literal notranslate"><span class="pre">oni-repl</span></code> Usage</a></li>
 </ul>
 </li>
 <li class="toctree-l1 current active has-children"><a class="reference internal" href="../index.html">Bonsai.ONIX (DEPRECATED)</a><input checked="" class="toctree-checkbox" id="toctree-checkbox-2" name="toctree-checkbox-2" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-2"><i class="fa-solid fa-chevron-down"></i></label><ul class="current">
diff --git a/Software Guide/Bonsai.ONIX/Bonsai Examples/Commutator.html b/Software Guide/Bonsai.ONIX/Bonsai Examples/Commutator.html
index a95b6cae..4120714d 100644
--- a/Software Guide/Bonsai.ONIX/Bonsai Examples/Commutator.html	
+++ b/Software Guide/Bonsai.ONIX/Bonsai Examples/Commutator.html	
@@ -365,10 +365,10 @@
      aria-label="Section Navigation">
   <p class="bd-links__title" role="heading" aria-level="1">Section Navigation</p>
   <div class="bd-toc-item navbar-nav"><ul class="current nav bd-sidenav">
-<li class="toctree-l1"><a class="reference internal" href="../../OpenEphys.Onix1/index.html">Bonsai</a></li>
-<li class="toctree-l1"><a class="reference internal" href="../../Open%20Ephys%20GUI/index.html">Open Ephys GUI</a></li>
-<li class="toctree-l1 has-children"><a class="reference internal" href="../../oni-repl/index.html">oni-repl</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
-<li class="toctree-l2"><a class="reference internal" href="../../oni-repl/usage.html">Usage</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../../OpenEphys.Onix1/index.html">Bonsai ONIX Package</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../../Open%20Ephys%20GUI/index.html">Open Ephys GUI ONIX Plugin</a></li>
+<li class="toctree-l1 has-children"><a class="reference internal" href="../../oni-repl/index.html">Command Line Application</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
+<li class="toctree-l2"><a class="reference internal" href="../../oni-repl/usage.html"><code class="docutils literal notranslate"><span class="pre">oni-repl</span></code> Usage</a></li>
 </ul>
 </li>
 <li class="toctree-l1 current active has-children"><a class="reference internal" href="../index.html">Bonsai.ONIX (DEPRECATED)</a><input checked="" class="toctree-checkbox" id="toctree-checkbox-2" name="toctree-checkbox-2" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-2"><i class="fa-solid fa-chevron-down"></i></label><ul class="current">
diff --git a/Software Guide/Bonsai.ONIX/Bonsai Examples/Headstage64.html b/Software Guide/Bonsai.ONIX/Bonsai Examples/Headstage64.html
index f2b857e5..1d706d64 100644
--- a/Software Guide/Bonsai.ONIX/Bonsai Examples/Headstage64.html	
+++ b/Software Guide/Bonsai.ONIX/Bonsai Examples/Headstage64.html	
@@ -365,10 +365,10 @@
      aria-label="Section Navigation">
   <p class="bd-links__title" role="heading" aria-level="1">Section Navigation</p>
   <div class="bd-toc-item navbar-nav"><ul class="current nav bd-sidenav">
-<li class="toctree-l1"><a class="reference internal" href="../../OpenEphys.Onix1/index.html">Bonsai</a></li>
-<li class="toctree-l1"><a class="reference internal" href="../../Open%20Ephys%20GUI/index.html">Open Ephys GUI</a></li>
-<li class="toctree-l1 has-children"><a class="reference internal" href="../../oni-repl/index.html">oni-repl</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
-<li class="toctree-l2"><a class="reference internal" href="../../oni-repl/usage.html">Usage</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../../OpenEphys.Onix1/index.html">Bonsai ONIX Package</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../../Open%20Ephys%20GUI/index.html">Open Ephys GUI ONIX Plugin</a></li>
+<li class="toctree-l1 has-children"><a class="reference internal" href="../../oni-repl/index.html">Command Line Application</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
+<li class="toctree-l2"><a class="reference internal" href="../../oni-repl/usage.html"><code class="docutils literal notranslate"><span class="pre">oni-repl</span></code> Usage</a></li>
 </ul>
 </li>
 <li class="toctree-l1 current active has-children"><a class="reference internal" href="../index.html">Bonsai.ONIX (DEPRECATED)</a><input checked="" class="toctree-checkbox" id="toctree-checkbox-2" name="toctree-checkbox-2" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-2"><i class="fa-solid fa-chevron-down"></i></label><ul class="current">
diff --git a/Software Guide/Bonsai.ONIX/Bonsai Examples/HeadstageNP1e.html b/Software Guide/Bonsai.ONIX/Bonsai Examples/HeadstageNP1e.html
index 9fade8bd..7e079f6e 100644
--- a/Software Guide/Bonsai.ONIX/Bonsai Examples/HeadstageNP1e.html	
+++ b/Software Guide/Bonsai.ONIX/Bonsai Examples/HeadstageNP1e.html	
@@ -365,10 +365,10 @@
      aria-label="Section Navigation">
   <p class="bd-links__title" role="heading" aria-level="1">Section Navigation</p>
   <div class="bd-toc-item navbar-nav"><ul class="current nav bd-sidenav">
-<li class="toctree-l1"><a class="reference internal" href="../../OpenEphys.Onix1/index.html">Bonsai</a></li>
-<li class="toctree-l1"><a class="reference internal" href="../../Open%20Ephys%20GUI/index.html">Open Ephys GUI</a></li>
-<li class="toctree-l1 has-children"><a class="reference internal" href="../../oni-repl/index.html">oni-repl</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
-<li class="toctree-l2"><a class="reference internal" href="../../oni-repl/usage.html">Usage</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../../OpenEphys.Onix1/index.html">Bonsai ONIX Package</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../../Open%20Ephys%20GUI/index.html">Open Ephys GUI ONIX Plugin</a></li>
+<li class="toctree-l1 has-children"><a class="reference internal" href="../../oni-repl/index.html">Command Line Application</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
+<li class="toctree-l2"><a class="reference internal" href="../../oni-repl/usage.html"><code class="docutils literal notranslate"><span class="pre">oni-repl</span></code> Usage</a></li>
 </ul>
 </li>
 <li class="toctree-l1 current active has-children"><a class="reference internal" href="../index.html">Bonsai.ONIX (DEPRECATED)</a><input checked="" class="toctree-checkbox" id="toctree-checkbox-2" name="toctree-checkbox-2" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-2"><i class="fa-solid fa-chevron-down"></i></label><ul class="current">
diff --git a/Software Guide/Bonsai.ONIX/Bonsai Examples/LatencyTest.html b/Software Guide/Bonsai.ONIX/Bonsai Examples/LatencyTest.html
index 5bbee138..3e58407a 100644
--- a/Software Guide/Bonsai.ONIX/Bonsai Examples/LatencyTest.html	
+++ b/Software Guide/Bonsai.ONIX/Bonsai Examples/LatencyTest.html	
@@ -365,10 +365,10 @@
      aria-label="Section Navigation">
   <p class="bd-links__title" role="heading" aria-level="1">Section Navigation</p>
   <div class="bd-toc-item navbar-nav"><ul class="current nav bd-sidenav">
-<li class="toctree-l1"><a class="reference internal" href="../../OpenEphys.Onix1/index.html">Bonsai</a></li>
-<li class="toctree-l1"><a class="reference internal" href="../../Open%20Ephys%20GUI/index.html">Open Ephys GUI</a></li>
-<li class="toctree-l1 has-children"><a class="reference internal" href="../../oni-repl/index.html">oni-repl</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
-<li class="toctree-l2"><a class="reference internal" href="../../oni-repl/usage.html">Usage</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../../OpenEphys.Onix1/index.html">Bonsai ONIX Package</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../../Open%20Ephys%20GUI/index.html">Open Ephys GUI ONIX Plugin</a></li>
+<li class="toctree-l1 has-children"><a class="reference internal" href="../../oni-repl/index.html">Command Line Application</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
+<li class="toctree-l2"><a class="reference internal" href="../../oni-repl/usage.html"><code class="docutils literal notranslate"><span class="pre">oni-repl</span></code> Usage</a></li>
 </ul>
 </li>
 <li class="toctree-l1 current active has-children"><a class="reference internal" href="../index.html">Bonsai.ONIX (DEPRECATED)</a><input checked="" class="toctree-checkbox" id="toctree-checkbox-2" name="toctree-checkbox-2" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-2"><i class="fa-solid fa-chevron-down"></i></label><ul class="current">
diff --git a/Software Guide/Bonsai.ONIX/Bonsai Examples/index.html b/Software Guide/Bonsai.ONIX/Bonsai Examples/index.html
index 76f0796f..ee63ea77 100644
--- a/Software Guide/Bonsai.ONIX/Bonsai Examples/index.html	
+++ b/Software Guide/Bonsai.ONIX/Bonsai Examples/index.html	
@@ -365,10 +365,10 @@
      aria-label="Section Navigation">
   <p class="bd-links__title" role="heading" aria-level="1">Section Navigation</p>
   <div class="bd-toc-item navbar-nav"><ul class="current nav bd-sidenav">
-<li class="toctree-l1"><a class="reference internal" href="../../OpenEphys.Onix1/index.html">Bonsai</a></li>
-<li class="toctree-l1"><a class="reference internal" href="../../Open%20Ephys%20GUI/index.html">Open Ephys GUI</a></li>
-<li class="toctree-l1 has-children"><a class="reference internal" href="../../oni-repl/index.html">oni-repl</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
-<li class="toctree-l2"><a class="reference internal" href="../../oni-repl/usage.html">Usage</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../../OpenEphys.Onix1/index.html">Bonsai ONIX Package</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../../Open%20Ephys%20GUI/index.html">Open Ephys GUI ONIX Plugin</a></li>
+<li class="toctree-l1 has-children"><a class="reference internal" href="../../oni-repl/index.html">Command Line Application</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
+<li class="toctree-l2"><a class="reference internal" href="../../oni-repl/usage.html"><code class="docutils literal notranslate"><span class="pre">oni-repl</span></code> Usage</a></li>
 </ul>
 </li>
 <li class="toctree-l1 current active has-children"><a class="reference internal" href="../index.html">Bonsai.ONIX (DEPRECATED)</a><input checked="" class="toctree-checkbox" id="toctree-checkbox-2" name="toctree-checkbox-2" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-2"><i class="fa-solid fa-chevron-down"></i></label><ul class="current">
diff --git a/Software Guide/Bonsai.ONIX/GettingStarted.html b/Software Guide/Bonsai.ONIX/GettingStarted.html
index f0ae043b..5cb86207 100644
--- a/Software Guide/Bonsai.ONIX/GettingStarted.html	
+++ b/Software Guide/Bonsai.ONIX/GettingStarted.html	
@@ -365,10 +365,10 @@
      aria-label="Section Navigation">
   <p class="bd-links__title" role="heading" aria-level="1">Section Navigation</p>
   <div class="bd-toc-item navbar-nav"><ul class="current nav bd-sidenav">
-<li class="toctree-l1"><a class="reference internal" href="../OpenEphys.Onix1/index.html">Bonsai</a></li>
-<li class="toctree-l1"><a class="reference internal" href="../Open%20Ephys%20GUI/index.html">Open Ephys GUI</a></li>
-<li class="toctree-l1 has-children"><a class="reference internal" href="../oni-repl/index.html">oni-repl</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
-<li class="toctree-l2"><a class="reference internal" href="../oni-repl/usage.html">Usage</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../OpenEphys.Onix1/index.html">Bonsai ONIX Package</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../Open%20Ephys%20GUI/index.html">Open Ephys GUI ONIX Plugin</a></li>
+<li class="toctree-l1 has-children"><a class="reference internal" href="../oni-repl/index.html">Command Line Application</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
+<li class="toctree-l2"><a class="reference internal" href="../oni-repl/usage.html"><code class="docutils literal notranslate"><span class="pre">oni-repl</span></code> Usage</a></li>
 </ul>
 </li>
 <li class="toctree-l1 current active has-children"><a class="reference internal" href="index.html">Bonsai.ONIX (DEPRECATED)</a><input checked="" class="toctree-checkbox" id="toctree-checkbox-2" name="toctree-checkbox-2" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-2"><i class="fa-solid fa-chevron-down"></i></label><ul class="current">
diff --git a/Software Guide/Bonsai.ONIX/Installation.html b/Software Guide/Bonsai.ONIX/Installation.html
index e080f5a9..9ec7a79f 100644
--- a/Software Guide/Bonsai.ONIX/Installation.html	
+++ b/Software Guide/Bonsai.ONIX/Installation.html	
@@ -365,10 +365,10 @@
      aria-label="Section Navigation">
   <p class="bd-links__title" role="heading" aria-level="1">Section Navigation</p>
   <div class="bd-toc-item navbar-nav"><ul class="current nav bd-sidenav">
-<li class="toctree-l1"><a class="reference internal" href="../OpenEphys.Onix1/index.html">Bonsai</a></li>
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diff --git a/Software Guide/Bonsai.ONIX/Nodes/BNO055Device.html b/Software Guide/Bonsai.ONIX/Nodes/BNO055Device.html
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diff --git a/Software Guide/Bonsai.ONIX/Nodes/ClockOutputDevice.html b/Software Guide/Bonsai.ONIX/Nodes/ClockOutputDevice.html
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diff --git a/Software Guide/Bonsai.ONIX/Nodes/DigitalIODevice.html b/Software Guide/Bonsai.ONIX/Nodes/DigitalIODevice.html
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diff --git a/Software Guide/Bonsai.ONIX/Nodes/ElectricalStimulationDevice.html b/Software Guide/Bonsai.ONIX/Nodes/ElectricalStimulationDevice.html
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diff --git a/Software Guide/Bonsai.ONIX/Nodes/MiniscopeV4BNO055Device.html b/Software Guide/Bonsai.ONIX/Nodes/MiniscopeV4BNO055Device.html
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 </ul>
 </li>
 <li class="toctree-l1 current active has-children"><a class="reference internal" href="../index.html">Bonsai.ONIX (DEPRECATED)</a><input checked="" class="toctree-checkbox" id="toctree-checkbox-2" name="toctree-checkbox-2" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-2"><i class="fa-solid fa-chevron-down"></i></label><ul class="current">
diff --git a/Software Guide/Bonsai.ONIX/Nodes/index.html b/Software Guide/Bonsai.ONIX/Nodes/index.html
index f51c55ef..054f29cc 100644
--- a/Software Guide/Bonsai.ONIX/Nodes/index.html	
+++ b/Software Guide/Bonsai.ONIX/Nodes/index.html	
@@ -365,10 +365,10 @@
      aria-label="Section Navigation">
   <p class="bd-links__title" role="heading" aria-level="1">Section Navigation</p>
   <div class="bd-toc-item navbar-nav"><ul class="current nav bd-sidenav">
-<li class="toctree-l1"><a class="reference internal" href="../../OpenEphys.Onix1/index.html">Bonsai</a></li>
-<li class="toctree-l1"><a class="reference internal" href="../../Open%20Ephys%20GUI/index.html">Open Ephys GUI</a></li>
-<li class="toctree-l1 has-children"><a class="reference internal" href="../../oni-repl/index.html">oni-repl</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
-<li class="toctree-l2"><a class="reference internal" href="../../oni-repl/usage.html">Usage</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../../OpenEphys.Onix1/index.html">Bonsai ONIX Package</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../../Open%20Ephys%20GUI/index.html">Open Ephys GUI ONIX Plugin</a></li>
+<li class="toctree-l1 has-children"><a class="reference internal" href="../../oni-repl/index.html">Command Line Application</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
+<li class="toctree-l2"><a class="reference internal" href="../../oni-repl/usage.html"><code class="docutils literal notranslate"><span class="pre">oni-repl</span></code> Usage</a></li>
 </ul>
 </li>
 <li class="toctree-l1 current active has-children"><a class="reference internal" href="../index.html">Bonsai.ONIX (DEPRECATED)</a><input checked="" class="toctree-checkbox" id="toctree-checkbox-2" name="toctree-checkbox-2" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-2"><i class="fa-solid fa-chevron-down"></i></label><ul class="current">
diff --git a/Software Guide/Bonsai.ONIX/index.html b/Software Guide/Bonsai.ONIX/index.html
index ee55bd53..f0aabdf4 100644
--- a/Software Guide/Bonsai.ONIX/index.html	
+++ b/Software Guide/Bonsai.ONIX/index.html	
@@ -47,7 +47,7 @@
     <link rel="index" title="Index" href="../../genindex.html" />
     <link rel="search" title="Search" href="../../search.html" />
     <link rel="next" title="Installation" href="Installation.html" />
-    <link rel="prev" title="Usage" href="../oni-repl/usage.html" />
+    <link rel="prev" title="oni-repl Usage" href="../oni-repl/usage.html" />
   <meta name="viewport" content="width=device-width, initial-scale=1"/>
   <meta name="docsearch:language" content="en"/>
   </head>
@@ -365,10 +365,10 @@
      aria-label="Section Navigation">
   <p class="bd-links__title" role="heading" aria-level="1">Section Navigation</p>
   <div class="bd-toc-item navbar-nav"><ul class="current nav bd-sidenav">
-<li class="toctree-l1"><a class="reference internal" href="../OpenEphys.Onix1/index.html">Bonsai</a></li>
-<li class="toctree-l1"><a class="reference internal" href="../Open%20Ephys%20GUI/index.html">Open Ephys GUI</a></li>
-<li class="toctree-l1 has-children"><a class="reference internal" href="../oni-repl/index.html">oni-repl</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
-<li class="toctree-l2"><a class="reference internal" href="../oni-repl/usage.html">Usage</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../OpenEphys.Onix1/index.html">Bonsai ONIX Package</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../Open%20Ephys%20GUI/index.html">Open Ephys GUI ONIX Plugin</a></li>
+<li class="toctree-l1 has-children"><a class="reference internal" href="../oni-repl/index.html">Command Line Application</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
+<li class="toctree-l2"><a class="reference internal" href="../oni-repl/usage.html"><code class="docutils literal notranslate"><span class="pre">oni-repl</span></code> Usage</a></li>
 </ul>
 </li>
 <li class="toctree-l1 current active has-children"><a class="current reference internal" href="#">Bonsai.ONIX (DEPRECATED)</a><input checked="" class="toctree-checkbox" id="toctree-checkbox-2" name="toctree-checkbox-2" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-2"><i class="fa-solid fa-chevron-down"></i></label><ul>
@@ -524,7 +524,7 @@ <h2>Using this Documentation<a class="headerlink" href="#using-this-documentatio
       <i class="fa-solid fa-angle-left"></i>
       <div class="prev-next-info">
         <p class="prev-next-subtitle">previous</p>
-        <p class="prev-next-title">Usage</p>
+        <p class="prev-next-title"><code class="docutils literal notranslate"><span class="pre">oni-repl</span></code> Usage</p>
       </div>
     </a>
     <a class="right-next"
diff --git a/Software Guide/Open Ephys GUI/index.html b/Software Guide/Open Ephys GUI/index.html
index d49b834d..2da4a5ad 100644
--- a/Software Guide/Open Ephys GUI/index.html	
+++ b/Software Guide/Open Ephys GUI/index.html	
@@ -8,7 +8,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
-    <title>Open Ephys GUI &#8212; ONIX Docs</title>
+    <title>Open Ephys GUI ONIX Plugin &#8212; ONIX Docs</title>
   
   
   
@@ -46,8 +46,8 @@
     <link rel="icon" href="../../_static/favicon.png"/>
     <link rel="index" title="Index" href="../../genindex.html" />
     <link rel="search" title="Search" href="../../search.html" />
-    <link rel="next" title="oni-repl" href="../oni-repl/index.html" />
-    <link rel="prev" title="Bonsai" href="../OpenEphys.Onix1/index.html" />
+    <link rel="next" title="Command Line Application" href="../oni-repl/index.html" />
+    <link rel="prev" title="Bonsai ONIX Package" href="../OpenEphys.Onix1/index.html" />
   <meta name="viewport" content="width=device-width, initial-scale=1"/>
   <meta name="docsearch:language" content="en"/>
   </head>
@@ -365,10 +365,10 @@
      aria-label="Section Navigation">
   <p class="bd-links__title" role="heading" aria-level="1">Section Navigation</p>
   <div class="bd-toc-item navbar-nav"><ul class="current nav bd-sidenav">
-<li class="toctree-l1"><a class="reference internal" href="../OpenEphys.Onix1/index.html">Bonsai</a></li>
-<li class="toctree-l1 current active"><a class="current reference internal" href="#">Open Ephys GUI</a></li>
-<li class="toctree-l1 has-children"><a class="reference internal" href="../oni-repl/index.html">oni-repl</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
-<li class="toctree-l2"><a class="reference internal" href="../oni-repl/usage.html">Usage</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../OpenEphys.Onix1/index.html">Bonsai ONIX Package</a></li>
+<li class="toctree-l1 current active"><a class="current reference internal" href="#">Open Ephys GUI ONIX Plugin</a></li>
+<li class="toctree-l1 has-children"><a class="reference internal" href="../oni-repl/index.html">Command Line Application</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
+<li class="toctree-l2"><a class="reference internal" href="../oni-repl/usage.html"><code class="docutils literal notranslate"><span class="pre">oni-repl</span></code> Usage</a></li>
 </ul>
 </li>
 <li class="toctree-l1 has-children"><a class="reference internal" href="../Bonsai.ONIX/index.html">Bonsai.ONIX (DEPRECATED)</a><input class="toctree-checkbox" id="toctree-checkbox-2" name="toctree-checkbox-2" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-2"><i class="fa-solid fa-chevron-down"></i></label><ul>
@@ -446,7 +446,7 @@
     
     <li class="breadcrumb-item"><a href="../index.html" class="nav-link"> Software Guide</a></li>
     
-    <li class="breadcrumb-item active" aria-current="page">Open Ephys GUI</li>
+    <li class="breadcrumb-item active" aria-current="page">Open Ephys GUI ONIX Plugin</li>
   </ul>
 </nav>
 </div>
@@ -463,8 +463,8 @@
 <div id="searchbox"></div>
                 <article class="bd-article" role="main">
                   
-  <section id="open-ephys-gui">
-<span id="id1"></span><h1>Open Ephys GUI<a class="headerlink" href="#open-ephys-gui" title="Link to this heading">#</a></h1>
+  <section id="open-ephys-gui-onix-plugin">
+<span id="open-ephys-gui"></span><h1>Open Ephys GUI ONIX Plugin<a class="headerlink" href="#open-ephys-gui-onix-plugin" title="Link to this heading">#</a></h1>
 <p>The <a class="reference external" href="https://open-ephys.github.io/gui-docs/index.html">Open Ephys GUI</a> is an
 open-source, plugin-based application for acquiring extracellular
 electrophysiology data. It was designed by neuroscientists to make their
@@ -473,8 +473,8 @@
 <div class="admonition note">
 <p class="admonition-title">Note</p>
 <p>An ONIX plugin for the Open Ephys is in development. To access all of
-ONIX’s capabilities right now, have a look at the <a class="reference internal" href="../OpenEphys.Onix1/index.html#openephys-onix1ref"><span class="std std-ref">OpenEphys.Onix1</span></a> Bonsai package.
-<strong>You can still take advantage of the GUI’s excellent
+ONIX’s capabilities right now, have a look at the <a class="reference internal" href="../OpenEphys.Onix1/index.html#openephys-onix1ref"><span class="std std-ref">Bonsai ONIX Package</span></a>.
+<strong>In the meantime, you can still take advantage of the GUI’s excellent
 ephys visualizaiton tools by streaming data from Bonsai to the GUI using
 the</strong> <a class="reference external" href="https://open-ephys.github.io/gui-docs/User-Manual/Plugins/Ephys-Socket.html">Ephys Socket Plugin</a>.</p>
 </div>
@@ -503,7 +503,7 @@
       <i class="fa-solid fa-angle-left"></i>
       <div class="prev-next-info">
         <p class="prev-next-subtitle">previous</p>
-        <p class="prev-next-title">Bonsai</p>
+        <p class="prev-next-title">Bonsai ONIX Package</p>
       </div>
     </a>
     <a class="right-next"
@@ -511,7 +511,7 @@
        title="next page">
       <div class="prev-next-info">
         <p class="prev-next-subtitle">next</p>
-        <p class="prev-next-title">oni-repl</p>
+        <p class="prev-next-title">Command Line Application</p>
       </div>
       <i class="fa-solid fa-angle-right"></i>
     </a>
diff --git a/Software Guide/OpenEphys.Onix1/index.html b/Software Guide/OpenEphys.Onix1/index.html
index 9c5a746e..953fd9c8 100644
--- a/Software Guide/OpenEphys.Onix1/index.html	
+++ b/Software Guide/OpenEphys.Onix1/index.html	
@@ -8,7 +8,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
-    <title>Bonsai &#8212; ONIX Docs</title>
+    <title>Bonsai ONIX Package &#8212; ONIX Docs</title>
   
   
   
@@ -46,7 +46,7 @@
     <link rel="icon" href="../../_static/favicon.png"/>
     <link rel="index" title="Index" href="../../genindex.html" />
     <link rel="search" title="Search" href="../../search.html" />
-    <link rel="next" title="Open Ephys GUI" href="../Open%20Ephys%20GUI/index.html" />
+    <link rel="next" title="Open Ephys GUI ONIX Plugin" href="../Open%20Ephys%20GUI/index.html" />
     <link rel="prev" title="Software Guide" href="../index.html" />
   <meta name="viewport" content="width=device-width, initial-scale=1"/>
   <meta name="docsearch:language" content="en"/>
@@ -365,10 +365,10 @@
      aria-label="Section Navigation">
   <p class="bd-links__title" role="heading" aria-level="1">Section Navigation</p>
   <div class="bd-toc-item navbar-nav"><ul class="current nav bd-sidenav">
-<li class="toctree-l1 current active"><a class="current reference internal" href="#">Bonsai</a></li>
-<li class="toctree-l1"><a class="reference internal" href="../Open%20Ephys%20GUI/index.html">Open Ephys GUI</a></li>
-<li class="toctree-l1 has-children"><a class="reference internal" href="../oni-repl/index.html">oni-repl</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
-<li class="toctree-l2"><a class="reference internal" href="../oni-repl/usage.html">Usage</a></li>
+<li class="toctree-l1 current active"><a class="current reference internal" href="#">Bonsai ONIX Package</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../Open%20Ephys%20GUI/index.html">Open Ephys GUI ONIX Plugin</a></li>
+<li class="toctree-l1 has-children"><a class="reference internal" href="../oni-repl/index.html">Command Line Application</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
+<li class="toctree-l2"><a class="reference internal" href="../oni-repl/usage.html"><code class="docutils literal notranslate"><span class="pre">oni-repl</span></code> Usage</a></li>
 </ul>
 </li>
 <li class="toctree-l1 has-children"><a class="reference internal" href="../Bonsai.ONIX/index.html">Bonsai.ONIX (DEPRECATED)</a><input class="toctree-checkbox" id="toctree-checkbox-2" name="toctree-checkbox-2" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-2"><i class="fa-solid fa-chevron-down"></i></label><ul>
@@ -446,7 +446,7 @@
     
     <li class="breadcrumb-item"><a href="../index.html" class="nav-link"> Software Guide</a></li>
     
-    <li class="breadcrumb-item active" aria-current="page">Bonsai</li>
+    <li class="breadcrumb-item active" aria-current="page">Bonsai ONIX Package</li>
   </ul>
 </nav>
 </div>
@@ -463,38 +463,23 @@
 <div id="searchbox"></div>
                 <article class="bd-article" role="main">
                   
-  <section id="bonsai">
-<span id="bonsairef"></span><h1>Bonsai<a class="headerlink" href="#bonsai" title="Link to this heading">#</a></h1>
-<p><a class="reference external" href="https://bonsai-rx.org/">Bonsai</a> is a visual programming language (think
-LabView) for <a class="reference external" href="https://en.wikipedia.org/wiki/Reactive_programming">reactive programming</a> with features such as:</p>
-<ul class="simple">
-<li><p>Real-time compilation of workflows to machine code as they are edited
-(zero-overhead).</p></li>
-<li><p>A large array of operators for combining and sychronizing asynchronous data
-streams, which is a major issue in other software.</p></li>
-<li><p>Lots of support for all sorts of hardware outside of ONIX.</p></li>
-</ul>
-<p>Bonsai is ideal for accessing the full power of ONIX hardware and combining it
-with third-party data sources (e.g. machine vision cameras,
-behavioral hardware, etc.), and for real-time processing and manipulation of
-data streams.</p>
-<section id="openephys-onix1">
-<span id="openephys-onix1ref"></span><h2>OpenEphys.Onix1<a class="headerlink" href="#openephys-onix1" title="Link to this heading">#</a></h2>
-<p><a class="reference external" href="https://open-ephys.github.io/onix1-bonsai-docs/index.html">OpenEphys.Onix1</a> is the Bonsai
-package for ONIX hardware. This package contains <a class="reference external" href="https://bonsai-rx.org/docs/articles/operators.html">Bonsai Operators</a> for acquiring and
+  <section id="bonsai-onix-package">
+<span id="openephys-onix1ref"></span><h1>Bonsai ONIX Package<a class="headerlink" href="#bonsai-onix-package" title="Link to this heading">#</a></h1>
+<p><code class="docutils literal notranslate"><span class="pre">OpenEphys.Onix1</span></code> is a <a class="reference external" href="https://bonsai-rx.org/">Bonsai</a> package for ONIX
+hardware. This package contains <a class="reference external" href="https://bonsai-rx.org/docs/articles/operators.html">Bonsai Operators</a> for acquiring and
 sending data to ONIX hardware.</p>
 <dl class="field-list simple">
 <dt class="field-odd">Code<span class="colon">:</span></dt>
-<dd class="field-odd"><p><a class="github reference external" href="https://github.com/open-ephys/onix-bonsai-onix1">open-ephys/onix-bonsai-onix1</a></p>
+<dd class="field-odd"><p><a class="github reference external" href="https://github.com/open-ephys/bonsai-onix1">open-ephys/bonsai-onix1</a></p>
 </dd>
 <dt class="field-even">Compatibility<span class="colon">:</span></dt>
-<dd class="field-even"><p>ONIX Hardware, UCLA miniscopes &amp; variants</p>
+<dd class="field-even"><p>All ONIX hardware, Neuropixels, UCLA miniscopes &amp; variants</p>
 </dd>
 <dt class="field-odd">Documentation<span class="colon">:</span></dt>
-<dd class="field-odd"><p><a class="reference external" href="https://open-ephys.github.io/onix1-bonsai-docs/index.html">https://open-ephys.github.io/onix1-bonsai-docs/index.html</a></p>
+<dd class="field-odd"><p><a class="reference external" href="https://open-ephys.github.io/bonsai-onix1-docs/index.html">https://open-ephys.github.io/bonsai-onix1-docs/index.html</a></p>
 </dd>
 </dl>
-<a href="https://open-ephys.github.io/onix1-bonsai-docs/index.html"><span class="std std-ref custom-card">
+<a href="https://open-ephys.github.io/bonsai-onix1-docs/index.html"><span class="std std-ref custom-card">
 <div class="card text-center page-card">
 
     <header>
@@ -504,7 +489,24 @@ <h1>Go to the OpenEphys.Onix1 Docs <i class="fas fa-external-link"></i></h1>
     class="page-card-img-marg hover-zoom" alt="OpenEphys.Onix1 bonsai
     package documentation">
 
-</div></section>
+</div><section id="what-is-bonsai">
+<h2>What is Bonsai?<a class="headerlink" href="#what-is-bonsai" title="Link to this heading">#</a></h2>
+<p><a class="reference external" href="https://bonsai-rx.org/">Bonsai</a> is a visual programming language (think
+LabView) for <a class="reference external" href="https://en.wikipedia.org/wiki/Reactive_programming">reactive programming</a> with features such as:</p>
+<ul class="simple">
+<li><p>Real-time compilation of workflows to machine code as they are edited
+(zero-overhead).</p></li>
+<li><p>A large array of operators for combining and sychronizing asynchronous data
+streams, which is a major issue in other software.</p></li>
+<li><p>Lots of support for all sorts of hardware outside of ONIX.</p></li>
+</ul>
+<p>Bonsai is A good choice for accessing the full power of ONIX hardware and
+combining it with third-party data sources (e.g. machine vision cameras,
+behavioral hardware, etc.), and for real-time processing and manipulation of
+data streams. The documentation linked above contains detailed instructions on
+how to use Bonsai with ONIX hardware along with fully useable example workflows,
+data loading scripts, etc.</p>
+</section>
 </section>
 
     <script type="text/javascript">
@@ -538,7 +540,7 @@ <h1>Go to the OpenEphys.Onix1 Docs <i class="fas fa-external-link"></i></h1>
        title="next page">
       <div class="prev-next-info">
         <p class="prev-next-subtitle">next</p>
-        <p class="prev-next-title">Open Ephys GUI</p>
+        <p class="prev-next-title">Open Ephys GUI ONIX Plugin</p>
       </div>
       <i class="fa-solid fa-angle-right"></i>
     </a>
@@ -560,7 +562,7 @@ <h1>Go to the OpenEphys.Onix1 Docs <i class="fas fa-external-link"></i></h1>
   </div>
   <nav class="bd-toc-nav page-toc">
     <ul class="visible nav section-nav flex-column">
-<li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#openephys-onix1">OpenEphys.Onix1</a></li>
+<li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#what-is-bonsai">What is Bonsai?</a></li>
 </ul>
   </nav></div>
 
diff --git a/Software Guide/index.html b/Software Guide/index.html
index cc66ae6a..d584d544 100644
--- a/Software Guide/index.html	
+++ b/Software Guide/index.html	
@@ -46,7 +46,7 @@
     <link rel="icon" href="../_static/favicon.png"/>
     <link rel="index" title="Index" href="../genindex.html" />
     <link rel="search" title="Search" href="../search.html" />
-    <link rel="next" title="Bonsai" href="OpenEphys.Onix1/index.html" />
+    <link rel="next" title="Bonsai ONIX Package" href="OpenEphys.Onix1/index.html" />
     <link rel="prev" title="Connections and Cables" href="../Hardware%20Guide/Connections%20%26%20Cables/index.html" />
   <meta name="viewport" content="width=device-width, initial-scale=1"/>
   <meta name="docsearch:language" content="en"/>
@@ -365,10 +365,10 @@
      aria-label="Section Navigation">
   <p class="bd-links__title" role="heading" aria-level="1">Section Navigation</p>
   <div class="bd-toc-item navbar-nav"><ul class="nav bd-sidenav">
-<li class="toctree-l1"><a class="reference internal" href="OpenEphys.Onix1/index.html">Bonsai</a></li>
-<li class="toctree-l1"><a class="reference internal" href="Open%20Ephys%20GUI/index.html">Open Ephys GUI</a></li>
-<li class="toctree-l1 has-children"><a class="reference internal" href="oni-repl/index.html">oni-repl</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
-<li class="toctree-l2"><a class="reference internal" href="oni-repl/usage.html">Usage</a></li>
+<li class="toctree-l1"><a class="reference internal" href="OpenEphys.Onix1/index.html">Bonsai ONIX Package</a></li>
+<li class="toctree-l1"><a class="reference internal" href="Open%20Ephys%20GUI/index.html">Open Ephys GUI ONIX Plugin</a></li>
+<li class="toctree-l1 has-children"><a class="reference internal" href="oni-repl/index.html">Command Line Application</a><input class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
+<li class="toctree-l2"><a class="reference internal" href="oni-repl/usage.html"><code class="docutils literal notranslate"><span class="pre">oni-repl</span></code> Usage</a></li>
 </ul>
 </li>
 <li class="toctree-l1 has-children"><a class="reference internal" href="Bonsai.ONIX/index.html">Bonsai.ONIX (DEPRECATED)</a><input class="toctree-checkbox" id="toctree-checkbox-2" name="toctree-checkbox-2" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-2"><i class="fa-solid fa-chevron-down"></i></label><ul>
@@ -465,14 +465,15 @@
 <div class="toctree-wrapper compound">
 </div>
 <dl class="simple">
-<dt><a class="reference internal" href="OpenEphys.Onix1/index.html#bonsairef"><span class="std std-ref">Bonsai</span></a></dt><dd><p><a class="reference internal" href="OpenEphys.Onix1/index.html#openephys-onix1ref"><span class="std std-ref">OpenEphys.Onix1</span></a> is a <a class="reference internal" href="OpenEphys.Onix1/index.html#bonsairef"><span class="std std-ref">Bonsai</span></a> package for acquiring data from ONIX
-hardware for real-time experiments. Bonsai is very good at processing the
+<dt><a class="reference internal" href="OpenEphys.Onix1/index.html#openephys-onix1ref"><span class="std std-ref">Bonsai ONIX Package</span></a></dt><dd><p><a class="reference internal" href="OpenEphys.Onix1/index.html#openephys-onix1ref"><span class="std std-ref">OpenEphys.Onix1</span></a> is a <a class="reference external" href="https://bonsai-rx.org/">Bonsai</a> package for acquiring data from ONIX hardware
+for real-time experiments. Bonsai is very good at processing the
 heterogeneous data streams produced by ONIX hardware.</p>
 </dd>
-<dt><a class="reference internal" href="Open%20Ephys%20GUI/index.html#open-ephys-gui"><span class="std std-ref">Open Ephys GUI</span></a></dt><dd><p>The Open Ephys GUI can be used for ONIX data visualization.</p>
+<dt><a class="reference internal" href="Open%20Ephys%20GUI/index.html#open-ephys-gui"><span class="std std-ref">Open Ephys GUI ONIX Plugin</span></a></dt><dd><p>The <cite>Open Ephys GUI &lt;https://open-ephys.github.io/gui-docs/&gt;</cite> excels at
+electrophysiology data visualization and recording.</p>
 </dd>
-<dt><a class="reference internal" href="oni-repl/index.html#oni-repl"><span class="std std-ref">oni-repl</span></a></dt><dd><p>A simple command-line application that can be used for debugging and basic
-streaming IO with ONIX hardware.</p>
+<dt><a class="reference internal" href="oni-repl/index.html#oni-repl"><span class="std std-ref">Command line application</span></a></dt><dd><p><cite>oni-repl</cite> is a simple command-line application that can be used for
+debugging and basic streaming IO with ONIX hardware.</p>
 </dd>
 </dl>
 <div class="admonition tip">
@@ -485,7 +486,7 @@
 <h2>Deprecated Software<a class="headerlink" href="#deprecated-software" title="Link to this heading">#</a></h2>
 <ul class="simple">
 <li><p>The <a class="reference internal" href="Bonsai.ONIX/index.html#bonsai-onixref"><span class="std std-ref">Bonsai.ONIX</span></a> pages provide information about the original Bonsai
-package, which has been superseded by <a class="reference internal" href="OpenEphys.Onix1/index.html#openephys-onix1ref"><span class="std std-ref">OpenEphys.Onix1</span></a></p></li>
+package, which has been superseded by <a class="reference internal" href="OpenEphys.Onix1/index.html#openephys-onix1ref"><span class="std std-ref">OpenEphys.Onix1</span></a>.</p></li>
 </ul>
 </section>
 </section>
@@ -521,7 +522,7 @@ <h2>Deprecated Software<a class="headerlink" href="#deprecated-software" title="
        title="next page">
       <div class="prev-next-info">
         <p class="prev-next-subtitle">next</p>
-        <p class="prev-next-title">Bonsai</p>
+        <p class="prev-next-title">Bonsai ONIX Package</p>
       </div>
       <i class="fa-solid fa-angle-right"></i>
     </a>
diff --git a/Software Guide/oni-repl/index.html b/Software Guide/oni-repl/index.html
index 5ab7ad2e..fb24adea 100644
--- a/Software Guide/oni-repl/index.html	
+++ b/Software Guide/oni-repl/index.html	
@@ -8,7 +8,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
-    <title>oni-repl &#8212; ONIX Docs</title>
+    <title>Command Line Application &#8212; ONIX Docs</title>
   
   
   
@@ -46,8 +46,8 @@
     <link rel="icon" href="../../_static/favicon.png"/>
     <link rel="index" title="Index" href="../../genindex.html" />
     <link rel="search" title="Search" href="../../search.html" />
-    <link rel="next" title="Usage" href="usage.html" />
-    <link rel="prev" title="Open Ephys GUI" href="../Open%20Ephys%20GUI/index.html" />
+    <link rel="next" title="oni-repl Usage" href="usage.html" />
+    <link rel="prev" title="Open Ephys GUI ONIX Plugin" href="../Open%20Ephys%20GUI/index.html" />
   <meta name="viewport" content="width=device-width, initial-scale=1"/>
   <meta name="docsearch:language" content="en"/>
   </head>
@@ -365,10 +365,10 @@
      aria-label="Section Navigation">
   <p class="bd-links__title" role="heading" aria-level="1">Section Navigation</p>
   <div class="bd-toc-item navbar-nav"><ul class="current nav bd-sidenav">
-<li class="toctree-l1"><a class="reference internal" href="../OpenEphys.Onix1/index.html">Bonsai</a></li>
-<li class="toctree-l1"><a class="reference internal" href="../Open%20Ephys%20GUI/index.html">Open Ephys GUI</a></li>
-<li class="toctree-l1 current active has-children"><a class="current reference internal" href="#">oni-repl</a><input checked="" class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
-<li class="toctree-l2"><a class="reference internal" href="usage.html">Usage</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../OpenEphys.Onix1/index.html">Bonsai ONIX Package</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../Open%20Ephys%20GUI/index.html">Open Ephys GUI ONIX Plugin</a></li>
+<li class="toctree-l1 current active has-children"><a class="current reference internal" href="#">Command Line Application</a><input checked="" class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul>
+<li class="toctree-l2"><a class="reference internal" href="usage.html"><code class="docutils literal notranslate"><span class="pre">oni-repl</span></code> Usage</a></li>
 </ul>
 </li>
 <li class="toctree-l1 has-children"><a class="reference internal" href="../Bonsai.ONIX/index.html">Bonsai.ONIX (DEPRECATED)</a><input class="toctree-checkbox" id="toctree-checkbox-2" name="toctree-checkbox-2" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-2"><i class="fa-solid fa-chevron-down"></i></label><ul>
@@ -446,7 +446,7 @@
     
     <li class="breadcrumb-item"><a href="../index.html" class="nav-link"> Software Guide</a></li>
     
-    <li class="breadcrumb-item active" aria-current="page">oni-repl</li>
+    <li class="breadcrumb-item active" aria-current="page">Command Line Application</li>
   </ul>
 </nav>
 </div>
@@ -463,12 +463,9 @@
 <div id="searchbox"></div>
                 <article class="bd-article" role="main">
                   
-  <section id="oni-repl">
-<span id="id1"></span><h1>oni-repl<a class="headerlink" href="#oni-repl" title="Link to this heading">#</a></h1>
+  <section id="command-line-application">
+<span id="oni-repl"></span><h1>Command Line Application<a class="headerlink" href="#command-line-application" title="Link to this heading">#</a></h1>
 <div class="toctree-wrapper compound">
-<ul>
-<li class="toctree-l1"><a class="reference internal" href="usage.html">Usage</a></li>
-</ul>
 </div>
 <p><code class="docutils literal notranslate"><span class="pre">oni-repl</span></code> is a simple <a class="reference external" href="https://en.wikipedia.org/wiki/Read%E2%80%93eval%E2%80%93print_loop">read-eval-print loop (REPL)</a> for
 <a class="reference external" href="https://open-ephys.github.io/ONI/api/liboni/index.html">liboni</a>.</p>
@@ -505,9 +502,8 @@
 <p><code class="docutils literal notranslate"><span class="pre">oni-repl</span></code> was created for hardware debugging and as a test program
 for <a class="reference external" href="https://open-ephys.github.io/ONI/api/liboni/index.html">liboni</a>.
 However, its simplicity and lack of abstraction compared to
-<a class="reference internal" href="../Bonsai.ONIX/index.html#bonsai-onixref"><span class="std std-ref">Bonsai.ONIX</span></a> make it useful as an example of how to use
-<a class="reference external" href="https://open-ephys.github.io/ONI/api/liboni/index.html">liboni</a> and
-for quickly examining hardware state and hub firmware versions.</p>
+<a class="reference internal" href="../Bonsai.ONIX/index.html#bonsai-onixref"><span class="std std-ref">Bonsai.ONIX</span></a> make it useful as an example of how to use <a class="reference external" href="https://open-ephys.github.io/ONI/api/liboni/index.html">liboni</a> and for quickly
+examining hardware state and hub firmware versions.</p>
 </div>
 <div class="highlight-none notranslate"><div class="highlight"><pre><span></span>   Jon Newman @ MIT                     **
    Jie Zhang @ MIT                     ////
@@ -571,7 +567,7 @@
       <i class="fa-solid fa-angle-left"></i>
       <div class="prev-next-info">
         <p class="prev-next-subtitle">previous</p>
-        <p class="prev-next-title">Open Ephys GUI</p>
+        <p class="prev-next-title">Open Ephys GUI ONIX Plugin</p>
       </div>
     </a>
     <a class="right-next"
@@ -579,7 +575,7 @@
        title="next page">
       <div class="prev-next-info">
         <p class="prev-next-subtitle">next</p>
-        <p class="prev-next-title">Usage</p>
+        <p class="prev-next-title"><code class="docutils literal notranslate"><span class="pre">oni-repl</span></code> Usage</p>
       </div>
       <i class="fa-solid fa-angle-right"></i>
     </a>
diff --git a/Software Guide/oni-repl/usage.html b/Software Guide/oni-repl/usage.html
index fe854471..9cf0c3eb 100644
--- a/Software Guide/oni-repl/usage.html	
+++ b/Software Guide/oni-repl/usage.html	
@@ -8,7 +8,7 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
-    <title>Usage &#8212; ONIX Docs</title>
+    <title>oni-repl Usage &#8212; ONIX Docs</title>
   
   
   
@@ -47,7 +47,7 @@
     <link rel="index" title="Index" href="../../genindex.html" />
     <link rel="search" title="Search" href="../../search.html" />
     <link rel="next" title="Bonsai.ONIX" href="../Bonsai.ONIX/index.html" />
-    <link rel="prev" title="oni-repl" href="index.html" />
+    <link rel="prev" title="Command Line Application" href="index.html" />
   <meta name="viewport" content="width=device-width, initial-scale=1"/>
   <meta name="docsearch:language" content="en"/>
   </head>
@@ -365,10 +365,10 @@
      aria-label="Section Navigation">
   <p class="bd-links__title" role="heading" aria-level="1">Section Navigation</p>
   <div class="bd-toc-item navbar-nav"><ul class="current nav bd-sidenav">
-<li class="toctree-l1"><a class="reference internal" href="../OpenEphys.Onix1/index.html">Bonsai</a></li>
-<li class="toctree-l1"><a class="reference internal" href="../Open%20Ephys%20GUI/index.html">Open Ephys GUI</a></li>
-<li class="toctree-l1 current active has-children"><a class="reference internal" href="index.html">oni-repl</a><input checked="" class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul class="current">
-<li class="toctree-l2 current active"><a class="current reference internal" href="#">Usage</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../OpenEphys.Onix1/index.html">Bonsai ONIX Package</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../Open%20Ephys%20GUI/index.html">Open Ephys GUI ONIX Plugin</a></li>
+<li class="toctree-l1 current active has-children"><a class="reference internal" href="index.html">Command Line Application</a><input checked="" class="toctree-checkbox" id="toctree-checkbox-1" name="toctree-checkbox-1" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-1"><i class="fa-solid fa-chevron-down"></i></label><ul class="current">
+<li class="toctree-l2 current active"><a class="current reference internal" href="#"><code class="docutils literal notranslate"><span class="pre">oni-repl</span></code> Usage</a></li>
 </ul>
 </li>
 <li class="toctree-l1 has-children"><a class="reference internal" href="../Bonsai.ONIX/index.html">Bonsai.ONIX (DEPRECATED)</a><input class="toctree-checkbox" id="toctree-checkbox-2" name="toctree-checkbox-2" type="checkbox"/><label class="toctree-toggle" for="toctree-checkbox-2"><i class="fa-solid fa-chevron-down"></i></label><ul>
@@ -447,9 +447,9 @@
     <li class="breadcrumb-item"><a href="../index.html" class="nav-link"> Software Guide</a></li>
     
     
-    <li class="breadcrumb-item"><a href="index.html" class="nav-link">oni-repl</a></li>
+    <li class="breadcrumb-item"><a href="index.html" class="nav-link">Command Line Application</a></li>
     
-    <li class="breadcrumb-item active" aria-current="page">Usage</li>
+    <li class="breadcrumb-item active" aria-current="page"><code class="docutils literal notranslate"><span class="pre">oni-repl</span></code> Usage</li>
   </ul>
 </nav>
 </div>
@@ -466,8 +466,8 @@
 <div id="searchbox"></div>
                 <article class="bd-article" role="main">
                   
-  <section id="usage">
-<span id="oni-repl-usage"></span><h1>Usage<a class="headerlink" href="#usage" title="Link to this heading">#</a></h1>
+  <section id="oni-repl-usage">
+<span id="id1"></span><h1><code class="docutils literal notranslate"><span class="pre">oni-repl</span></code> Usage<a class="headerlink" href="#oni-repl-usage" title="Link to this heading">#</a></h1>
 <div class="highlight-console notranslate"><div class="highlight"><pre><span></span><span class="go">oni-repl &lt;driver&gt; [slot] [-d] [-D &lt;value&gt;] [-n &lt;value&gt;] [-i &lt;device index&gt;]</span>
 <span class="go">[--rbytes=&lt;bytes&gt;] [--wbytes=&lt;bytes&gt;] [--dumppath=&lt;path&gt;] [-h,--help] [-v,--version]</span>
 </pre></div>
@@ -660,7 +660,7 @@ <h2>REPL Commands<a class="headerlink" href="#repl-commands" title="Link to this
       <i class="fa-solid fa-angle-left"></i>
       <div class="prev-next-info">
         <p class="prev-next-subtitle">previous</p>
-        <p class="prev-next-title">oni-repl</p>
+        <p class="prev-next-title">Command Line Application</p>
       </div>
     </a>
     <a class="right-next"
diff --git a/_sources/Hardware Guide/Headstages/tether-voltage.rst.txt b/_sources/Hardware Guide/Headstages/tether-voltage.rst.txt
index bd34293f..1814dd26 100644
--- a/_sources/Hardware Guide/Headstages/tether-voltage.rst.txt	
+++ b/_sources/Hardware Guide/Headstages/tether-voltage.rst.txt	
@@ -20,7 +20,7 @@ host computer will not be able to detect the headstage. A borderline
 voltage can still cause connectivity issues as the headstage occasionally dips
 below the level it needs to function properly.
 
-.. attention:: The :ref:`openephys_onix1ref` Bonsai package automatically sets the
+.. attention:: The :ref:`Bonsai package <openephys_onix1ref>` automatically sets the
    headstage port voltage by default, but allows the user to override the
    voltage setting as well. The documentation linked shows how to use this
    functionality and what valid voltage ranges are for each headstage. This
diff --git a/_sources/Hardware Guide/Miniscopes/index.rst.txt b/_sources/Hardware Guide/Miniscopes/index.rst.txt
index a17a374c..92d479ba 100644
--- a/_sources/Hardware Guide/Miniscopes/index.rst.txt	
+++ b/_sources/Hardware Guide/Miniscopes/index.rst.txt	
@@ -10,7 +10,7 @@ UCLA Miniscope V3
 :Design Repository: https://github.com/daharoni/Miniscope_CMOS_Imaging_Sensor_PCB
 :Documentation: http://miniscope.org/index.php/Guides_and_Tutorials
 :Compatibility: :ref:`pcie_host`, :ref:`breakout`
-:Software: :ref:`openephys_onix1ref` Bonsai package
+:Software: :ref:`openephys_onix1ref`
 
 .. figure:: /_static/images/miniscopes/ucla-miniscope-v3-render.jpg
     :align: center
@@ -21,7 +21,7 @@ UCLA Miniscope V4
 :Design Repository: https://github.com/Aharoni-Lab/Miniscope-v4
 :Documentation: https://github.com/Aharoni-Lab/Miniscope-v4/wiki
 :Compatibility: :ref:`pcie_host`, :ref:`breakout`
-:Software: :ref:`openephys_onix1ref` Bonsai package
+:Software: :ref:`openephys_onix1ref`
 
 .. figure:: /_static/images/miniscopes/ucla-miniscope-v4-render.png
     :align: center
diff --git a/_sources/Hardware Guide/PCIe Host/setup-windows.rst.txt b/_sources/Hardware Guide/PCIe Host/setup-windows.rst.txt
index 3f2ebbce..0b447535 100644
--- a/_sources/Hardware Guide/PCIe Host/setup-windows.rst.txt	
+++ b/_sources/Hardware Guide/PCIe Host/setup-windows.rst.txt	
@@ -117,7 +117,5 @@ Install Device Driver
 
 Install Software
 ---------------------------------------
-Have a look at the :ref:`software_guide` page for open-source software options. We
-recommend using :ref:`bonsairef` and the :ref:`openephys_onix1ref` Bonsai package because it provides first class
-support for all ONIX hardware features. 
+Have a look at the :ref:`software_guide` page for software options.
 
diff --git a/_sources/Software Guide/Open Ephys GUI/index.rst.txt b/_sources/Software Guide/Open Ephys GUI/index.rst.txt
index e2931055..b927d14f 100644
--- a/_sources/Software Guide/Open Ephys GUI/index.rst.txt	
+++ b/_sources/Software Guide/Open Ephys GUI/index.rst.txt	
@@ -1,6 +1,6 @@
 .. _open_ephys_gui:
 
-Open Ephys GUI
+Open Ephys GUI ONIX Plugin
 --------------------------------------------
 
 The `Open Ephys GUI <https://open-ephys.github.io/gui-docs/index.html>`__ is an
@@ -10,8 +10,8 @@ experiments more flexible and enjoyable. It works equally well on macOS, Linux,
 and Windows.
 
 .. note:: An ONIX plugin for the Open Ephys is in development. To access all of
-   ONIX's capabilities right now, have a look at the :ref:`openephys_onix1ref` Bonsai package.
-   **You can still take advantage of the GUI's excellent
+   ONIX's capabilities right now, have a look at the :ref:`openephys_onix1ref`.
+   **In the meantime, you can still take advantage of the GUI's excellent
    ephys visualizaiton tools by streaming data from Bonsai to the GUI using
    the** `Ephys Socket Plugin <https://open-ephys.github.io/gui-docs/User-Manual/Plugins/Ephys-Socket.html>`__.
 
diff --git a/_sources/Software Guide/OpenEphys.Onix1/index.rst.txt b/_sources/Software Guide/OpenEphys.Onix1/index.rst.txt
index 36b16162..fc3374f2 100644
--- a/_sources/Software Guide/OpenEphys.Onix1/index.rst.txt	
+++ b/_sources/Software Guide/OpenEphys.Onix1/index.rst.txt	
@@ -1,44 +1,23 @@
-.. _bonsairef:
-
-Bonsai
-========================
-
-`Bonsai <https://bonsai-rx.org/>`__ is a visual programming language (think
-LabView) for `reactive programming
-<https://en.wikipedia.org/wiki/Reactive_programming>`__ with features such as: 
-
-- Real-time compilation of workflows to machine code as they are edited
-  (zero-overhead).
-- A large array of operators for combining and sychronizing asynchronous data
-  streams, which is a major issue in other software.
-- Lots of support for all sorts of hardware outside of ONIX.
-
-Bonsai is ideal for accessing the full power of ONIX hardware and combining it
-with third-party data sources (e.g. machine vision cameras,
-behavioral hardware, etc.), and for real-time processing and manipulation of
-data streams. 
-
 .. _openephys_onix1ref:
 
-OpenEphys.Onix1
-----------------
+Bonsai ONIX Package
+=================================
 
-`OpenEphys.Onix1
-<https://open-ephys.github.io/onix1-bonsai-docs/index.html>`__ is the Bonsai
-package for ONIX hardware. This package contains `Bonsai Operators
+``OpenEphys.Onix1`` is a `Bonsai <https://bonsai-rx.org/>`__ package for ONIX
+hardware. This package contains `Bonsai Operators
 <https://bonsai-rx.org/docs/articles/operators.html>`__ for acquiring and
 sending data to ONIX hardware.
 
-:Code: https://github.com/open-ephys/onix-bonsai-onix1 
-:Compatibility: ONIX Hardware, UCLA miniscopes & variants
-:Documentation: https://open-ephys.github.io/onix1-bonsai-docs/index.html
+:Code: https://github.com/open-ephys/bonsai-onix1
+:Compatibility: All ONIX hardware, Neuropixels, UCLA miniscopes & variants
+:Documentation: https://open-ephys.github.io/bonsai-onix1-docs/index.html
 
 .. raw:: html
 
-        <a href="https://open-ephys.github.io/onix1-bonsai-docs/index.html"><span class="std std-ref custom-card">
+        <a href="https://open-ephys.github.io/bonsai-onix1-docs/index.html"><span class="std std-ref custom-card">
         <div class="card text-center page-card">
 
-            <header> 
+            <header>
                 <h1>Go to the OpenEphys.Onix1 Docs <i class="fas fa-external-link"></i></h1>
             </header>
             <img src="../../_static/images/bonsai-lettering.svg"
@@ -46,3 +25,22 @@ sending data to ONIX hardware.
             package documentation">
 
         </div>
+
+What is Bonsai?
+------------------------------
+`Bonsai <https://bonsai-rx.org/>`__ is a visual programming language (think
+LabView) for `reactive programming
+<https://en.wikipedia.org/wiki/Reactive_programming>`__ with features such as:
+
+- Real-time compilation of workflows to machine code as they are edited
+  (zero-overhead).
+- A large array of operators for combining and sychronizing asynchronous data
+  streams, which is a major issue in other software.
+- Lots of support for all sorts of hardware outside of ONIX.
+
+Bonsai is A good choice for accessing the full power of ONIX hardware and
+combining it with third-party data sources (e.g. machine vision cameras,
+behavioral hardware, etc.), and for real-time processing and manipulation of
+data streams. The documentation linked above contains detailed instructions on
+how to use Bonsai with ONIX hardware along with fully useable example workflows,
+data loading scripts, etc.
diff --git a/_sources/Software Guide/index.rst.txt b/_sources/Software Guide/index.rst.txt
index e72ac82e..eeec17b0 100644
--- a/_sources/Software Guide/index.rst.txt	
+++ b/_sources/Software Guide/index.rst.txt	
@@ -14,17 +14,19 @@
     oni-repl/index
     Bonsai.ONIX (DEPRECATED) <Bonsai.ONIX/index>
 
-:ref:`Bonsai <bonsairef>`
-    :ref:`openephys_onix1ref` is a :ref:`bonsairef` package for acquiring data from ONIX
-    hardware for real-time experiments. Bonsai is very good at processing the
+:ref:`Bonsai ONIX Package <openephys_onix1ref>`
+    :ref:`OpenEphys.Onix1 <openephys_onix1ref>` is a `Bonsai
+    <https://bonsai-rx.org/>`__ package for acquiring data from ONIX hardware
+    for real-time experiments. Bonsai is very good at processing the
     heterogeneous data streams produced by ONIX hardware.
 
-:ref:`Open Ephys GUI <open_ephys_gui>`
-    The Open Ephys GUI can be used for ONIX data visualization.
+:ref:`Open Ephys GUI ONIX Plugin <open_ephys_gui>`
+    The `Open Ephys GUI <https://open-ephys.github.io/gui-docs/>` excels at
+    electrophysiology data visualization and recording.
 
-:ref:`oni-repl <oni_repl>`
-    A simple command-line application that can be used for debugging and basic
-    streaming IO with ONIX hardware.
+:ref:`Command line application <oni_repl>`
+    `oni-repl` is a simple command-line application that can be used for
+    debugging and basic streaming IO with ONIX hardware.
 
 .. tip:: ONIX uses an `ONI-compliant API
    <https://open-ephys.github.io/ONI/api/index.html>`__ that is software
@@ -35,5 +37,5 @@ Deprecated Software
 ___________________________________
 
 - The :ref:`bonsai_onixref` pages provide information about the original Bonsai
-  package, which has been superseded by :ref:`openephys_onix1ref`
+  package, which has been superseded by :ref:`OpenEphys.Onix1 <openephys_onix1ref>`.
 
diff --git a/_sources/Software Guide/oni-repl/index.rst.txt b/_sources/Software Guide/oni-repl/index.rst.txt
index 31b168f1..dab68345 100644
--- a/_sources/Software Guide/oni-repl/index.rst.txt	
+++ b/_sources/Software Guide/oni-repl/index.rst.txt	
@@ -1,9 +1,10 @@
 .. _oni_repl:
 
-oni-repl
+Command Line Application
 ===================================
 
 .. toctree::
+    :hidden:
     :maxdepth: 1
 
     usage
@@ -33,11 +34,11 @@ hardware to perform the following:
 - Bulk initialize device register state
 
 .. note:: ``oni-repl`` was created for hardware debugging and as a test program
-    for `liboni <https://open-ephys.github.io/ONI/api/liboni/index.html>`__. 
-    However, its simplicity and lack of abstraction compared to
-    :ref:`bonsai_onixref` make it useful as an example of how to use 
-    `liboni <https://open-ephys.github.io/ONI/api/liboni/index.html>`__ and
-    for quickly examining hardware state and hub firmware versions.
+   for `liboni <https://open-ephys.github.io/ONI/api/liboni/index.html>`__.
+   However, its simplicity and lack of abstraction compared to
+   :ref:`bonsai_onixref` make it useful as an example of how to use `liboni
+   <https://open-ephys.github.io/ONI/api/liboni/index.html>`__ and for quickly
+   examining hardware state and hub firmware versions.
 
 .. code-block:: none
 
diff --git a/_sources/Software Guide/oni-repl/usage.rst.txt b/_sources/Software Guide/oni-repl/usage.rst.txt
index 0bc8840b..9eda2b9d 100644
--- a/_sources/Software Guide/oni-repl/usage.rst.txt	
+++ b/_sources/Software Guide/oni-repl/usage.rst.txt	
@@ -1,19 +1,19 @@
 .. _oni_repl_usage:
 
-Usage
+``oni-repl`` Usage
 ====================================
 
 .. code-block:: console
 
-    oni-repl <driver> [slot] [-d] [-D <value>] [-n <value>] [-i <device index>] 
-    [--rbytes=<bytes>] [--wbytes=<bytes>] [--dumppath=<path>] [-h,--help] [-v,--version] 
+    oni-repl <driver> [slot] [-d] [-D <value>] [-n <value>] [-i <device index>]
+    [--rbytes=<bytes>] [--wbytes=<bytes>] [--dumppath=<path>] [-h,--help] [-v,--version]
 
 Required Arguments
 -----------------------------------
-<driver>        
+<driver>
     Hardware driver to dynamically link (e.g. **riffa**,
     **ft600**, **test_driver**, etc.)
-[slot]           
+[slot]
     Index specifying the physical slot occupied by hardware being controlled.
     If none is provided, the driver-defined default will be used.
 
@@ -58,33 +58,33 @@ index 0) and a single headstage (starting at device index 256).
 
 .. code-block:: console
 
-   $ ./liboni-test riffa 0 
+   $ ./liboni-test riffa 0
 
-       Jon Newman @ MIT                     **                
-       Jie Zhang @ MIT                     ////               
-       Aarón Cuevas López @ UPV             ///.              
-       Josh Seigle @ Allen                  ///,.             
-       Jakob Voigts @ MIT                   *///,             
-                         *.                  ///,,            
-                       ,####/                ///,,,           
-                     ,,,,/####//             *///,,.          
-                   ,,,,,   //##////           ///,,,          
-                 ,,,,,      ,///#/////        ///.,,,         
-               ,,,,,          //// //////     *///,,,,        
-             ,,,,,             ,////  /////,   /// ,,,,       
-            ,,,,                 ////   ,/////.///  ,,,       
-         .,,,,                    .////    ,///##//  ,,,      
-       .,,,,                        ////      */###/ .,,,     
-      ,///***,,..........,,,...      ,////      /##(///,,,    
-         .,,,,,,**,,..................,((((,..../(((((((((.   
-              .,......,                .*(((/...,(((,,,(###   
-                   .........              ////   ///.  ///,   
-                        ........,          ,///* */// ////    
-       Open Ephys Org.       .,......,       //// ///.///     
-                                  ........,   *///(/////      
-       Supporting open science         .,......,//((((//      
-       since 2010.                          ....,/(##(/       
-                                                 .,###.       
+       Jon Newman @ MIT                     **
+       Jie Zhang @ MIT                     ////
+       Aarón Cuevas López @ UPV             ///.
+       Josh Seigle @ Allen                  ///,.
+       Jakob Voigts @ MIT                   *///,
+                         *.                  ///,,
+                       ,####/                ///,,,
+                     ,,,,/####//             *///,,.
+                   ,,,,,   //##////           ///,,,
+                 ,,,,,      ,///#/////        ///.,,,
+               ,,,,,          //// //////     *///,,,,
+             ,,,,,             ,////  /////,   /// ,,,,
+            ,,,,                 ////   ,/////.///  ,,,
+         .,,,,                    .////    ,///##//  ,,,
+       .,,,,                        ////      */###/ .,,,
+      ,///***,,..........,,,...      ,////      /##(///,,,
+         .,,,,,,**,,..................,((((,..../(((((((((.
+              .,......,                .*(((/...,(((,,,(###
+                   .........              ////   ///.  ///,
+                        ........,          ,///* */// ////
+       Open Ephys Org.       .,......,       //// ///.///
+                                  ........,   *///(/////
+       Supporting open science         .,......,//((((//
+       since 2010.                          ....,/(##(/
+                                                 .,###.
 
           +--------------------+-------+-------+-------+-------+---------------------
           |                    |       |Firm.  |Read   |Wrt.   |
@@ -150,4 +150,4 @@ index 0) and a single headstage (starting at device index 256).
                a - reset the acquisition clock counter
                x - issue a hardware reset
                q - quit
-       >>> 
+       >>>
diff --git a/objects.inv b/objects.inv
index 7a36a25c..2c84fb7f 100644
Binary files a/objects.inv and b/objects.inv differ
diff --git a/searchindex.js b/searchindex.js
index 4070d279..09287604 100644
--- a/searchindex.js
+++ b/searchindex.js
@@ -1 +1 @@
-Search.setIndex({"docnames": ["Getting Started/index", "Getting Started/troubleshooting", "Getting Started/warnings", "Getting Started/whatisonix", "Hardware Guide/Adapters & EIBs/eib-64", "Hardware Guide/Adapters & EIBs/eib-64-large", "Hardware Guide/Adapters & EIBs/index", "Hardware Guide/Adapters & EIBs/nano-z-adapter-64", "Hardware Guide/Adapters & EIBs/omnetics-adapter-64", "Hardware Guide/Breakout Board/index", "Hardware Guide/Breakout Board/setup", "Hardware Guide/Breakout Board/updating-breakout-firmware", "Hardware Guide/Commutators/index", "Hardware Guide/Connections & Cables/index", "Hardware Guide/Datasheets/bno055", "Hardware Guide/Datasheets/ds90ub9x-raw", "Hardware Guide/Datasheets/estim-hs64", "Hardware Guide/Datasheets/fmc-analog-io", "Hardware Guide/Datasheets/fmc-clock-out", "Hardware Guide/Datasheets/fmc-digital-io", "Hardware Guide/Datasheets/fmc-link-control", "Hardware Guide/Datasheets/heartbeat", "Hardware Guide/Datasheets/index", "Hardware Guide/Datasheets/load-test", "Hardware Guide/Datasheets/memory-usage", "Hardware Guide/Datasheets/neuropixels-v1", "Hardware Guide/Datasheets/ostim-hs64", "Hardware Guide/Datasheets/rhd2164", "Hardware Guide/Datasheets/rhs2116", "Hardware Guide/Datasheets/rhs2116-trigger", "Hardware Guide/Datasheets/test-0", "Hardware Guide/Datasheets/ts4231-v1-array", "Hardware Guide/Headstages/headstage-64/index", "Hardware Guide/Headstages/headstage-64/test-board-64", "Hardware Guide/Headstages/headstage-neuropix-1", "Hardware Guide/Headstages/headstage-neuropix-1e", "Hardware Guide/Headstages/headstage-neuropix-2e", "Hardware Guide/Headstages/headstage-neuropix-2e-beta", "Hardware Guide/Headstages/headstage-rhs2116", "Hardware Guide/Headstages/index", "Hardware Guide/Headstages/serialization", "Hardware Guide/Headstages/setup", "Hardware Guide/Headstages/tether-voltage", "Hardware Guide/Headstages/tethers", "Hardware Guide/Lighthouses/index", "Hardware Guide/Lighthouses/setup", "Hardware Guide/Miniscopes/index", "Hardware Guide/PCIe Host/bracket-assembly", "Hardware Guide/PCIe Host/index", "Hardware Guide/PCIe Host/multi-board-sync", "Hardware Guide/PCIe Host/overview", "Hardware Guide/PCIe Host/programming-with-jtag", "Hardware Guide/PCIe Host/setup-windows", "Hardware Guide/PCIe Host/updating-firmware", "Hardware Guide/index", "Resources/downloads", "Resources/faq", "Resources/index", "Resources/support", "Software Guide/Bonsai.ONIX/Bonsai Examples/CameraSync", "Software Guide/Bonsai.ONIX/Bonsai Examples/Commutator", "Software Guide/Bonsai.ONIX/Bonsai Examples/Headstage64", "Software Guide/Bonsai.ONIX/Bonsai Examples/HeadstageNP1e", "Software Guide/Bonsai.ONIX/Bonsai Examples/LatencyTest", "Software Guide/Bonsai.ONIX/Bonsai Examples/index", "Software Guide/Bonsai.ONIX/GettingStarted", "Software Guide/Bonsai.ONIX/Installation", "Software Guide/Bonsai.ONIX/Nodes/AnalogIODevice", "Software Guide/Bonsai.ONIX/Nodes/BNO055Device", "Software Guide/Bonsai.ONIX/Nodes/ClockOutputDevice", "Software Guide/Bonsai.ONIX/Nodes/DigitalIODevice", "Software Guide/Bonsai.ONIX/Nodes/ElectricalStimulationDevice", "Software Guide/Bonsai.ONIX/Nodes/HeadstagePortControlDevice", "Software Guide/Bonsai.ONIX/Nodes/HeartbeatDevice", "Software Guide/Bonsai.ONIX/Nodes/MemoryUsageDevice", "Software Guide/Bonsai.ONIX/Nodes/MiniscopeV3Device", "Software Guide/Bonsai.ONIX/Nodes/MiniscopeV4BNO055Device", "Software Guide/Bonsai.ONIX/Nodes/MiniscopeV4Device", "Software Guide/Bonsai.ONIX/Nodes/NeuropixelsV1Device", "Software Guide/Bonsai.ONIX/Nodes/NeuropixelsV1eDevice", "Software Guide/Bonsai.ONIX/Nodes/ONIContext", "Software Guide/Bonsai.ONIX/Nodes/OpticalStimulationDevice", "Software Guide/Bonsai.ONIX/Nodes/RHD2164Device", "Software Guide/Bonsai.ONIX/Nodes/RHS2116Device", "Software Guide/Bonsai.ONIX/Nodes/RHS2116TriggerDevice", "Software Guide/Bonsai.ONIX/Nodes/TS4231V1Device", "Software Guide/Bonsai.ONIX/Nodes/index", "Software Guide/Bonsai.ONIX/deprecation-notice", "Software Guide/Bonsai.ONIX/index", "Software Guide/Open Ephys GUI/index", "Software Guide/OpenEphys.Onix1/index", "Software Guide/index", "Software Guide/oni-repl/index", "Software Guide/oni-repl/usage", "index"], "filenames": ["Getting Started/index.rst", "Getting Started/troubleshooting.rst", "Getting Started/warnings.rst", "Getting Started/whatisonix.rst", "Hardware Guide/Adapters & EIBs/eib-64.rst", "Hardware Guide/Adapters & EIBs/eib-64-large.rst", "Hardware Guide/Adapters & EIBs/index.rst", "Hardware Guide/Adapters & EIBs/nano-z-adapter-64.rst", "Hardware Guide/Adapters & EIBs/omnetics-adapter-64.rst", "Hardware Guide/Breakout Board/index.rst", "Hardware Guide/Breakout Board/setup.rst", "Hardware Guide/Breakout Board/updating-breakout-firmware.rst", "Hardware Guide/Commutators/index.rst", "Hardware Guide/Connections & Cables/index.rst", "Hardware Guide/Datasheets/bno055.rst", "Hardware Guide/Datasheets/ds90ub9x-raw.rst", "Hardware Guide/Datasheets/estim-hs64.rst", "Hardware Guide/Datasheets/fmc-analog-io.rst", "Hardware Guide/Datasheets/fmc-clock-out.rst", "Hardware Guide/Datasheets/fmc-digital-io.rst", "Hardware Guide/Datasheets/fmc-link-control.rst", "Hardware Guide/Datasheets/heartbeat.rst", "Hardware Guide/Datasheets/index.rst", "Hardware Guide/Datasheets/load-test.rst", "Hardware Guide/Datasheets/memory-usage.rst", "Hardware Guide/Datasheets/neuropixels-v1.rst", "Hardware Guide/Datasheets/ostim-hs64.rst", "Hardware Guide/Datasheets/rhd2164.rst", "Hardware Guide/Datasheets/rhs2116.rst", "Hardware Guide/Datasheets/rhs2116-trigger.rst", "Hardware Guide/Datasheets/test-0.rst", "Hardware Guide/Datasheets/ts4231-v1-array.rst", "Hardware Guide/Headstages/headstage-64/index.rst", "Hardware Guide/Headstages/headstage-64/test-board-64.rst", "Hardware Guide/Headstages/headstage-neuropix-1.rst", "Hardware Guide/Headstages/headstage-neuropix-1e.rst", "Hardware Guide/Headstages/headstage-neuropix-2e.rst", "Hardware Guide/Headstages/headstage-neuropix-2e-beta.rst", "Hardware Guide/Headstages/headstage-rhs2116.rst", "Hardware Guide/Headstages/index.rst", "Hardware Guide/Headstages/serialization.rst", "Hardware Guide/Headstages/setup.rst", "Hardware Guide/Headstages/tether-voltage.rst", "Hardware Guide/Headstages/tethers.rst", "Hardware Guide/Lighthouses/index.rst", "Hardware Guide/Lighthouses/setup.rst", "Hardware Guide/Miniscopes/index.rst", "Hardware Guide/PCIe Host/bracket-assembly.rst", "Hardware Guide/PCIe Host/index.rst", "Hardware Guide/PCIe Host/multi-board-sync.rst", "Hardware Guide/PCIe Host/overview.rst", "Hardware Guide/PCIe Host/programming-with-jtag.rst", "Hardware Guide/PCIe Host/setup-windows.rst", "Hardware Guide/PCIe Host/updating-firmware.rst", "Hardware Guide/index.rst", "Resources/downloads.rst", "Resources/faq.rst", "Resources/index.rst", "Resources/support.rst", "Software Guide/Bonsai.ONIX/Bonsai Examples/CameraSync.rst", "Software Guide/Bonsai.ONIX/Bonsai Examples/Commutator.rst", "Software Guide/Bonsai.ONIX/Bonsai Examples/Headstage64.rst", "Software Guide/Bonsai.ONIX/Bonsai Examples/HeadstageNP1e.rst", "Software Guide/Bonsai.ONIX/Bonsai Examples/LatencyTest.rst", "Software Guide/Bonsai.ONIX/Bonsai Examples/index.rst", "Software Guide/Bonsai.ONIX/GettingStarted.rst", "Software Guide/Bonsai.ONIX/Installation.rst", "Software Guide/Bonsai.ONIX/Nodes/AnalogIODevice.rst", "Software Guide/Bonsai.ONIX/Nodes/BNO055Device.rst", "Software Guide/Bonsai.ONIX/Nodes/ClockOutputDevice.rst", "Software Guide/Bonsai.ONIX/Nodes/DigitalIODevice.rst", "Software Guide/Bonsai.ONIX/Nodes/ElectricalStimulationDevice.rst", "Software Guide/Bonsai.ONIX/Nodes/HeadstagePortControlDevice.rst", "Software Guide/Bonsai.ONIX/Nodes/HeartbeatDevice.rst", "Software Guide/Bonsai.ONIX/Nodes/MemoryUsageDevice.rst", "Software Guide/Bonsai.ONIX/Nodes/MiniscopeV3Device.rst", "Software Guide/Bonsai.ONIX/Nodes/MiniscopeV4BNO055Device.rst", "Software 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42, 58, 64, 79], "http": [12, 43, 46, 51, 58, 90], "github": [12, 90], "doc": [12, 25, 65, 90], "index": [12, 15, 28, 31, 32, 40, 43, 46, 53, 90, 93], "html": [12, 51, 90], "inerti": [12, 14, 32, 76], "unit": [12, 14, 28, 31, 32, 34, 35, 36, 37, 38, 71, 76, 81, 83], "imu": [12, 14, 32, 34, 35, 36, 37, 61, 62], "orient": [12, 13, 14, 34, 35, 36, 37, 47, 54, 61, 62, 68], "known": [12, 80], "qualiti": [12, 40, 43], "radio": [12, 43, 80], "frequenc": [12, 18, 21, 23, 24, 32, 34, 38, 40, 43, 69, 82, 83, 93], "rotari": [12, 54], "joint": [12, 43, 47, 54], "insid": [12, 43, 47], "lead": [12, 43, 47], "18": [12, 19, 32, 93], "ghz": [12, 40, 43], "80": [12, 13, 43], "rail": [12, 32], "mountabl": 12, "remot": [12, 29], "json": [12, 60, 78, 79], "encod": [12, 31, 40, 67], "capacit": 12, "sens": [12, 83], "advanc": [12, 56, 65], "stepper": 12, "tmc2130": 12, "silent": 12, "precis": [12, 16, 17, 32, 43, 54], "motion": 12, "interpol": 12, "256": [12, 93], "ustep": 12, "super": [12, 25], "capacitor": 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40, 50, 64, 65, 78, 79, 80, 83, 84, 90], "bipolar": 16, "current": [16, 18, 19, 23, 26, 27, 28, 32, 38, 42, 43, 52, 53, 54, 71, 78, 79, 80, 81, 83, 93], "stimuli": [16, 28, 38, 71, 81, 83], "circuit": [16, 19, 26, 28, 32, 40, 42, 93], "enhanc": 16, "howland": [16, 32], "pump": [16, 32], "dac": [16, 17, 27, 28, 67], "volt": [16, 19, 20, 28, 32, 34, 35, 36, 37, 38, 42, 67, 82, 83], "regul": 16, "epoch": 16, "minim": [16, 32, 43], "nois": [16, 28, 71], "trace": 16, "dual": [16, 32, 81], "sit": [16, 54], "outsid": [16, 90], "stimulu": [16, 26, 28, 29, 32, 38, 71, 81, 83, 84], "puls": [16, 26, 28, 32, 71, 81, 83], "ground": [16, 42, 43], "electrolysi": 16, "due": [16, 32, 43], "charg": [16, 28, 32], "imbal": [16, 32], "shunt": 16, "resistor": [16, 26, 32], "accumul": [16, 19, 40, 74, 93], "slight": 16, "mismatch": [16, 78, 79], "chosen": [16, 83], "stabil": 16, "stabl": [16, 52], "macroelectrod": 16, "cut": [16, 43, 47], "stainless": 16, "steel": [16, 32, 38], "microelectrod": 16, "mohm": 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"rhd2164": 27, "rhs2116": [28, 29, 38], "trigger": 29, "test0": 30, "ts4231": 31, "arrai": 31, "vive": 31, "base": 31, "station": 31, "electrophysiologi": [32, 38], "auxiliari": 32, "input": 32, "3d": [32, 44], "posit": 32, "track": [32, 44], "todo": [32, 33, 49, 59, 63, 78, 79], "orient": 32, "neural": 32, "elect": 32, "0": 34, "0e": [35, 36, 62], "probe": [36, 37, 78, 79], "identif": [36, 37], "0ebeta": 37, "power": 40, "ds90ub933": 40, "4": 40, "commun": 40, "protocol": 40, "configur": [40, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80, 81, 82, 83, 84, 85], "measur": 42, "gnd": 42, "vcoax": 42, "locat": 42, "make": 43, "which": 43, "assembli": [43, 47], "side": 43, "miniscop": [46, 54], "ucla": 46, "v3": 46, "v4": 46, "pcie": [47, 48, 49, 50, 51, 52, 54, 55], "bracket": 47, "insert": [47, 52], "modul": [47, 50, 52], "synchron": [49, 59], "multipl": 49, "numato": 50, "nereid": 50, "stack": 50, "blank": 51, "disabl": 52, "secur": 52, "boot": 52, "put": 52, "In": 52, "mode": 52, "instal": [52, 66], "c": 52, "runtim": 52, "driver": [52, 55], "softwar": [52, 91], "hw_logo": 54, "hardwar": 54, "download": [55, 57], "repl": [55, 92, 93], "consol": 55, "applic": 55, "tool": 55, "riffa": 55, "faq": [56, 57], "resources_logo": 57, "resourc": [57, 65], "support": 57, "contact": 58, "camera": 59, "workflow": [59, 60, 61, 62, 63, 64], "manual": 60, "script": [61, 62, 67], "exampl": 64, "bonsai": [65, 88, 90], "learn": 65, "access": 65, "document": [65, 88], "tutori": 65, "analogiodevic": 67, "bno055devic": 68, "clockoutputdevic": 69, "digitaliodevic": 70, "electricalstimulationdevic": 71, "properti": [71, 78, 79, 81, 83], "pane": [71, 78, 79, 81, 83], "gui": [71, 78, 79, 80, 81, 83, 89], "headstageportcontroldevic": 72, "heartbeatdevic": 73, "memoryusagedevic": 74, "miniscopev3devic": 75, "miniscopev4bno055devic": 76, "miniscopev4devic": 77, "neuropixelsv1devic": 78, "import": [78, 79], "imec": [78, 79], "calibr": [78, 79], "upload": [78, 79], "save": [78, 79], "neuropixelsv1edevic": 79, "onicontext": 80, "purpos": 80, "hub": 80, "sync": 80, "opticalstimulationdevic": 81, "rhd2164devic": 82, "rhs2116devic": 83, "rhs2116triggerdevic": 84, "ts4231v1devic": 85, "node": 86, "thi": 88, "open": 89, "ephi": 89, "openephi": 90, "onix1": 90, "software_logo": 91, "deprec": 91, "requir": 93, "argument": 93, "command": 93, "line": 93, "option": 93}, "envversion": {"sphinx.domains.c": 3, "sphinx.domains.changeset": 1, "sphinx.domains.citation": 1, "sphinx.domains.cpp": 9, "sphinx.domains.index": 1, "sphinx.domains.javascript": 3, "sphinx.domains.math": 2, "sphinx.domains.python": 4, "sphinx.domains.rst": 2, "sphinx.domains.std": 2, "sphinx.ext.todo": 2, "sphinx": 60}, "alltitles": {"Getting Started": [[0, "id1"], [65, "getting-started"]], "Understanding the System": [[0, "understanding-the-system"]], "Usage Warnings": [[0, "usage-warnings"], [2, "usage-warnings"]], "Setting up your system": [[0, "setting-up-your-system"]], "Using ONIX": [[0, "using-onix"]], "Troubleshooting": [[1, "id1"]], "Breakout Board": [[2, "breakout-board"], [9, "breakout-board"]], "Headstage Voltages": [[2, "headstage-voltages"], [42, "headstage-voltages"]], "What is ONIX?": [[3, "id1"]], "1. Standards & Interoperability": [[3, "standards-interoperability"]], "2. Thin Tethers & Zero Torque Commutation": [[3, "thin-tethers-zero-torque-commutation"]], "3. Low Latencies": [[3, "low-latencies"]], "EIB-64": [[4, "eib-64"]], "Bill of Materials": [[4, "bill-of-materials"], [5, "bill-of-materials"], [7, "bill-of-materials"], [8, "bill-of-materials"], [32, "bill-of-materials"], [38, "bill-of-materials"]], "Pinout": [[4, "pinout"], [5, "pinout"], [8, "pinout"]], "Tetrode Connectorization": [[4, "tetrode-connectorization"], [5, "tetrode-connectorization"]], "EIB-64L": [[5, "eib-64l"]], "Adapters & EIBs": [[6, "adapters-eibs"], [54, "adapters-eibs"]], "64-Channel Nano-Z Adapter": [[7, "channel-nano-z-adapter"]], "Electrode Mapping": [[7, "electrode-mapping"]], "64-Channel Omnetics Adpater": [[8, "channel-omnetics-adpater"]], "Overview": [[9, "overview"], [12, "overview"], [50, "overview"]], "Features": [[9, "features"], [12, "features"], [32, "features"], [38, "features"]], "Breakout Board Guide": [[10, "breakout-board-guide"]], "Setup": [[10, "setup"], [41, "setup"], [45, "setup"]], "Reset Button": [[10, "reset-button"]], "SDR Cable": [[10, "sdr-cable"]], "MMCX Cables": [[10, "mmcx-cables"]], "LEDs": [[10, "leds"]], "Buttons": [[10, "buttons"]], "Gateware": [[10, "gateware"]], "Updating Breakout Board Firmware in Windows": [[11, "updating-breakout-board-firmware-in-windows"]], "Coaxial Commutators": [[12, "coaxial-commutators"]], "Connections and Cables": [[13, "connections-and-cables"]], "Connection types": [[13, "connection-types"]], "Headstage Link": [[13, "headstage-link"]], "Digital and Analog I/O": [[13, "digital-and-analog-i-o"]], "Lighthouses": [[13, "lighthouses"], [54, "lighthouses"]], "Commutator link": [[13, "commutator-link"]], "Cable List": [[13, "cable-list"]], "Connecting MMCX": [[13, "connecting-mmcx"]], "Connecting Micro-Coax Headstage Tethers": [[13, "connecting-micro-coax-headstage-tethers"]], "BNO055": [[14, "bno055"]], "Description": [[14, "description"], [15, "description"], [16, "description"], [17, "description"], [18, "description"], [19, "description"], [20, "description"], [21, "description"], [23, "description"], [24, "description"], [25, "description"], [26, "description"], [27, "description"], [28, "description"], [29, "description"], [30, "description"], [31, "description"]], "Register Programming": [[14, "register-programming"], [15, "register-programming"], [16, "register-programming"], [17, "register-programming"], [18, "register-programming"], [19, "register-programming"], [20, "register-programming"], [21, "register-programming"], [23, "register-programming"], [24, "register-programming"], [25, "register-programming"], [26, "register-programming"], [27, "register-programming"], [28, "register-programming"], [29, "register-programming"], [30, "register-programming"], [31, "register-programming"]], "Device To Host Data Frames": [[14, "device-to-host-data-frames"], [15, "device-to-host-data-frames"], [16, "device-to-host-data-frames"], [17, "device-to-host-data-frames"], [18, "device-to-host-data-frames"], [19, "device-to-host-data-frames"], [20, "device-to-host-data-frames"], [21, "device-to-host-data-frames"], [23, "device-to-host-data-frames"], [24, "device-to-host-data-frames"], [25, "device-to-host-data-frames"], [26, "device-to-host-data-frames"], [27, "device-to-host-data-frames"], [28, "device-to-host-data-frames"], [29, "device-to-host-data-frames"], [30, "device-to-host-data-frames"], [31, "device-to-host-data-frames"]], "Host To Device Data Frames": [[14, "host-to-device-data-frames"], [15, "host-to-device-data-frames"], [16, "host-to-device-data-frames"], [17, "host-to-device-data-frames"], [18, "host-to-device-data-frames"], [19, "host-to-device-data-frames"], [20, "host-to-device-data-frames"], [21, "host-to-device-data-frames"], [23, "host-to-device-data-frames"], [24, "host-to-device-data-frames"], [25, "host-to-device-data-frames"], [26, "host-to-device-data-frames"], [27, "host-to-device-data-frames"], [28, "host-to-device-data-frames"], [29, "host-to-device-data-frames"], [30, "host-to-device-data-frames"], [31, "host-to-device-data-frames"]], "DS90UB9X Raw Device": [[15, "ds90ub9x-raw-device"]], "Managed Registers": [[15, "managed-registers"], [15, "id1"], [25, "managed-registers"], [25, "id1"], [27, "managed-registers"], [27, "id1"], [28, "managed-registers"], [28, "id1"]], "Unmanaged Registers": [[15, "unmanaged-registers"], [25, "unmanaged-registers"], [25, "id2"], [27, "unmanaged-registers"], [27, "id2"], [28, "unmanaged-registers"], [28, "id2"]], "HS64 Electrical Stimulator": [[16, "hs64-electrical-stimulator"]], "HS64 Electrical Stimulator Registers": [[16, "estim-hs64-regs"]], "FMC Host Analog IO Device": [[17, "fmc-host-analog-io-device"]], "FMC Host Clock Output Device": [[18, "fmc-host-clock-output-device"]], "FMC Host Digital IO Device": [[19, "fmc-host-digital-io-device"]], "Breakout to Host Serialization": [[19, "breakout-to-host-serialization"]], "Host to Breakout Serialization": [[19, "host-to-breakout-serialization"]], "FMC Link Controller": [[20, "fmc-link-controller"]], "Heartbeat": [[21, "heartbeat"]], "ONI Datasheets": [[22, "oni-datasheets"]], "Load Test Device": [[23, "load-test-device"]], "Memory Usage Monitor": [[24, "memory-usage-monitor"]], "Neuropixels V1": [[25, "neuropixels-v1"]], "HS64 Optical Stimulator": [[26, "hs64-optical-stimulator"]], "HS64 Optical Stimulator Registers": [[26, "ostim-hs64-regs"]], "RHD2164": [[27, "rhd2164"]], "RHS2116": [[28, "rhs2116"]], "RHS2116 Trigger": [[29, "rhs2116-trigger"]], "Test0 Device": [[30, "test0-device"]], "TS4231 Array for Vive V1 Base Stations": [[31, "ts4231-array-for-vive-v1-base-stations"]], "Headstage-64": [[32, "headstage-64"]], "Data Link Serialization": [[32, "data-link-serialization"], [38, "data-link-serialization"]], "Electrophysiology & Auxiliary Analog Inputs": [[32, "electrophysiology-auxiliary-analog-inputs"]], "3D Position Tracking": [[32, "d-position-tracking"]], "Todo": [[32, "id2"], [33, "id1"], [49, "id1"], [59, "id1"], [59, "id2"], [63, "id1"], [78, "id1"], [79, "id1"]], "3D Orientation Tracking": [[32, "d-orientation-tracking"]], "Neural Stimulation": [[32, "neural-stimulation"]], "Optical Stimulation": [[32, "optical-stimulation"]], "Electical Stimulation": [[32, "electical-stimulation"]], "Test Board for Headstage-64": [[33, "test-board-for-headstage-64"]], "Neuropixels-1.0 Headstage": [[34, "neuropixels-1-0-headstage"]], "Coaxial Link": [[34, "coaxial-link"], [35, "coaxial-link"], [36, "coaxial-link"], [37, "coaxial-link"]], "Neuropixels-1.0e Headstage": [[35, "neuropixels-1-0e-headstage"]], "Neuropixels-2.0e Headstage": [[36, "neuropixels-2-0e-headstage"]], "Probe connector identification": [[36, "probe-connector-identification"], [37, "probe-connector-identification"]], "Neuropixels-2.0eBeta Headstage": [[37, "neuropixels-2-0ebeta-headstage"]], "RHS2116 Headstage": [[38, "rhs2116-headstage"]], "Electrophysiology": [[38, "electrophysiology"]], "Headstages": [[39, "headstages"]], "Coaxial Data Serialization & Power": [[40, "coaxial-data-serialization-power"]], "Power": [[40, "power"]], "DS90UB933/4 Communication Protocols": [[40, "ds90ub933-4-communication-protocols"]], "Data Serialization": [[40, "data-serialization"]], "Register Configuration": [[40, "register-configuration"]], "Setting Headstage Voltage": [[42, "setting-headstage-voltage"]], "Measuring Headstage Voltage": [[42, "measuring-headstage-voltage"]], "GND and Vcoax location": [[42, "id1"]], "Making Coaxial Tethers": [[43, "making-coaxial-tethers"]], "Which Coaxial Cable?": [[43, "which-coaxial-cable"]], "Assembly Guide": [[43, "assembly-guide"]], "Headstage Side": [[43, "headstage-side"]], "Host/Commutator Side": [[43, "host-commutator-side"]], "3D-Tracking Lighthouses": [[44, "d-tracking-lighthouses"]], "Miniscopes": [[46, "miniscopes"]], "UCLA Miniscope V3": [[46, "ucla-miniscope-v3"]], "UCLA Miniscope V4": [[46, "ucla-miniscope-v4"]], "PCIe Bracket Assembly": [[47, "pcie-bracket-assembly"]], "Materials": [[47, "materials"]], "Bill of materials": [[47, "id1"]], "Insert the PCIe Host Module": [[47, "insert-the-pcie-host-module"], [52, "insert-the-pcie-host-module"]], "PCIe Host": [[48, "pcie-host"], [54, "pcie-host"]], "Synchronizing Multiple PCIe Hosts": [[49, "synchronizing-multiple-pcie-hosts"]], "Host Module": [[50, "host-module"]], "Numato Nereid": [[50, "numato-nereid"]], "PCIe Stack": [[50, "pcie-stack"]], "Programming a Blank PCIe Host (Windows)": [[51, "programming-a-blank-pcie-host-windows"]], "Setup Guide for Windows": [[52, "setup-guide-for-windows"]], "Disable Secure Boot": [[52, "disable-secure-boot"]], "Put Windows In Testing Mode": [[52, "put-windows-in-testing-mode"]], "Install C++ Runtime": [[52, "install-c-runtime"]], "Install Device Driver": [[52, "install-device-driver"]], "Install Software": [[52, "install-software"]], "Updating Firmware in Windows": [[53, "updating-firmware-in-windows"]], "hw_logo Hardware Guide": [[54, "hw-logo-hardware-guide"]], "Breakout": [[54, "breakout"]], "Headstages & Miniscopes": [[54, "headstages-miniscopes"]], "Commutators": [[54, "commutators"]], "Downloads": [[55, "downloads"], [57, "downloads"]], "oni-repl Console Application": [[55, "oni-repl-console-application"]], "oni-repl Windows downloads": [[55, "id2"]], "PCIe Host Updater": [[55, "pcie-host-updater"]], "PCIe Host update tools": [[55, "id3"]], "Breakout Board Updater": [[55, "breakout-board-updater"]], "Breakout Board update tools": [[55, "id4"]], "RIFFA Device Driver": [[55, "riffa-device-driver"]], "RIFFA PCIe driver": [[55, "id5"]], "PCIe Host Firmware": [[55, "pcie-host-firmware"]], "Breakout Board Firmware": [[55, "breakout-board-firmware"]], "FAQ": [[56, "faq"], [57, "faq"]], "resources_logo Resources": [[57, "resources-logo-resources"]], "Support": [[57, "support"]], "Contact": [[58, "contact"]], "Camera Synchronization Workflow": [[59, "camera-synchronization-workflow"]], "Usage": [[59, "usage"], [60, "usage"], [63, "usage"], [93, "usage"]], "Manual Commutator Workflow": [[60, "manual-commutator-workflow"]], "Headstage-64 Workflow": [[61, "headstage-64-workflow"]], "Loading Scripts": [[61, "loading-scripts"], [62, "loading-scripts"], [67, "loading-scripts"]], "Headstage Neuropixels 1.0e Workflow": [[62, "headstage-neuropixels-1-0e-workflow"]], "Latency Test Workflow": [[63, "latency-test-workflow"]], "Example Workflows": [[64, "example-workflows"]], "Bonsai Learning Resources": [[65, "bonsai-learning-resources"]], "Accessing Bonsai.ONIX Documentation": [[65, "accessing-bonsai-onix-documentation"]], "Bonsai.ONIX Tutorial": [[65, "bonsai-onix-tutorial"]], "Installation": [[66, "installation"]], "AnalogIODevice": [[67, "analogiodevice"]], "Configuration": [[67, "configuration"], [68, "configuration"], [69, "configuration"], [70, "configuration"], [71, "configuration"], [72, "configuration"], [73, "configuration"], [74, "configuration"], [75, "configuration"], [76, "configuration"], [77, "configuration"], [78, "configuration"], [79, "configuration"], [81, "configuration"], [82, "configuration"], [83, "configuration"], [84, "configuration"], [85, "configuration"]], "BNO055Device": [[68, "bno055device"]], "ClockOutputDevice": [[69, "clockoutputdevice"]], "DigitalIODevice": [[70, "digitaliodevice"]], "ElectricalStimulationDevice": [[71, "electricalstimulationdevice"]], "Property Pane": [[71, "property-pane"], [78, "property-pane"], [79, "property-pane"], [81, "property-pane"], [83, "property-pane"]], "Configuration GUI": [[71, "configuration-gui"], [78, "configuration-gui"], [79, "configuration-gui"], [80, "configuration-gui"], [81, "configuration-gui"], [83, "configuration-gui"]], "GUI Controls": [[71, "gui-controls"], [81, "gui-controls"]], "HeadstagePortControlDevice": [[72, "headstageportcontroldevice"]], "HeartbeatDevice": [[73, "heartbeatdevice"]], "MemoryUsageDevice": [[74, "memoryusagedevice"]], "MiniscopeV3Device": [[75, "miniscopev3device"]], "MiniscopeV4BNO055Device": [[76, "miniscopev4bno055device"]], "MiniscopeV4Device": [[77, "miniscopev4device"]], "NeuropixelsV1Device": [[78, "neuropixelsv1device"]], "Importing IMEC Calibration Data": [[78, "importing-imec-calibration-data"], [79, "importing-imec-calibration-data"]], "Configuring the Probe": [[78, "configuring-the-probe"], [79, "configuring-the-probe"]], "Uploading to the Probe": [[78, "uploading-to-the-probe"], [79, "uploading-to-the-probe"]], "Saving Configurations": [[78, "saving-configurations"], [79, "saving-configurations"]], "Loading Configurations": [[78, "loading-configurations"], [79, "loading-configurations"]], "NeuropixelsV1eDevice": [[79, "neuropixelsv1edevice"]], "ONIContext": [[80, "onicontext"]], "Purpose": [[80, "purpose"]], "Settings \u279e  Hubs\u2026": [[80, "settings-hubs"]], "Settings \u279e  Host Sync\u2026": [[80, "settings-host-sync"]], "OpticalStimulationDevice": [[81, "opticalstimulationdevice"]], "RHD2164Device": [[82, "rhd2164device"]], "RHS2116Device": [[83, "rhs2116device"]], "RHS2116TriggerDevice": [[84, "rhs2116triggerdevice"]], "TS4231V1Device": [[85, "ts4231v1device"]], "Nodes": [[86, "nodes"]], "Bonsai.ONIX": [[88, "bonsai-onix"]], "Using this Documentation": [[88, "using-this-documentation"]], "Open Ephys GUI": [[89, "open-ephys-gui"]], "Bonsai": [[90, "bonsai"]], "OpenEphys.Onix1": [[90, "openephys-onix1"]], "software_logo Software Guide": [[91, "software-logo-software-guide"]], "Deprecated Software": [[91, "deprecated-software"]], "oni-repl": [[92, "oni-repl"]], "Required Arguments": [[93, "required-arguments"]], "Command Line Options": [[93, "command-line-options"]], "REPL Commands": [[93, "repl-commands"]]}, "indexentries": {"can i use headstage_64 with a silicon probe instead of tetrodes?": [[56, "term-Can-I-use-headstage_64-with-a-silicon-probe-instead-of-tetrodes"]], "can i use my older intan headstages with the system?": [[56, "term-Can-I-use-my-older-Intan-headstages-with-the-system"]], "how is oni different than onix?": [[56, "term-How-is-ONI-different-than-ONIX"]], "i have existing acquisition hardware. can i can use your api and software to acquire data from it?": [[56, "term-I-have-existing-acquisition-hardware.-Can-I-can-use-your-API-and-software-to-acquire-data-from-it"]], "i have existing acquisition software. can i integrate support for onix hardware using your api?": [[56, "term-I-have-existing-acquisition-software.-Can-I-integrate-support-for-ONIX-hardware-using-your-API"]], "is onix hardware available for purchase?": [[56, "term-Is-ONIX-hardware-available-for-purchase"]], "what does onix stand for?": [[56, "term-What-does-ONIX-stand-for"]], "what is onix?": [[56, "term-What-is-ONIX"]], "what is open ephys?": [[56, "term-What-is-Open-Ephys"]], "where do i get help when using the system?": [[56, "term-Where-do-I-get-help-when-using-the-system"]], "why is there no open ephys gui plugin for onix hardware?": [[56, "term-Why-is-there-no-Open-Ephys-GUI-plugin-for-ONIX-hardware"]]}})
\ No newline at end of file
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92, 93], "acquir": [3, 10, 15, 25, 27, 28, 50, 56, 61, 62, 64, 75, 76, 77, 80, 88, 89, 90, 91, 94], "extracellular": [3, 58, 61, 62, 89], "mean": [3, 10, 15, 20, 40], "same": [3, 11, 19, 24, 36, 37, 43, 54, 80, 84], "now": [3, 51, 52, 53, 78, 79, 89], "so": [3, 10, 13, 16, 26, 32, 40, 43, 51, 53, 55, 56, 62, 74], "lab": [3, 46, 48, 51], "do": [3, 10, 13, 15, 19, 29, 32, 38, 40, 51, 53, 56, 58, 71, 78, 79, 80, 81, 84], "spend": 3, "time": [3, 12, 14, 15, 16, 17, 18, 19, 20, 21, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 34, 35, 36, 37, 38, 40, 67, 78, 79, 80, 83, 90, 91, 93], "monei": 3, "purchas": [3, 56, 58], "separ": [3, 32, 43], "extra": 3, "tool": [3, 11, 43, 47, 51, 64, 66, 89, 94], "wish": [3, 71, 81], "add": [3, 51], "experi": [3, 10, 54, 89, 91, 94], "addition": [3, 9, 83], "those": [3, 20], "new": [3, 17, 80, 94], "studi": 3, "brain": [3, 48], "provid": [3, 4, 5, 9, 10, 12, 13, 14, 15, 16, 17, 20, 22, 23, 25, 26, 27, 28, 31, 32, 40, 43, 48, 50, 54, 61, 63, 66, 68, 71, 72, 78, 79, 80, 81, 83, 84, 88, 91, 92, 93], "backend": 3, "infrastructur": 3, "reus": 3, "control": [3, 9, 10, 12, 15, 19, 22, 26, 27, 28, 30, 32, 40, 41, 42, 43, 50, 60, 61, 69, 72, 75, 76, 77, 80, 84, 92, 93], "almost": 3, "ani": [3, 11, 32, 40, 43, 50, 53, 54, 55, 80, 83, 92], "recod": 3, "There": [3, 10, 23, 28, 32, 57, 79, 80, 88], "grow": 3, "appreci": 3, "examin": [3, 78, 79, 92, 93], "natur": 3, "behaviour": 3, "anim": [3, 4, 5, 12, 32, 38, 54, 94], "often": [3, 13, 20], "larger": [3, 43, 67, 78, 79, 80, 82, 83], "intric": 3, "perhap": 3, "experiment": [3, 9, 10, 56, 80], "It": [3, 4, 13, 17, 18, 20, 21, 32, 43, 50, 52, 54, 65, 66, 80, 83, 89, 94], "impair": 3, "littl": 3, "possibl": [3, 13, 19, 32, 50, 71, 88], "achiev": [3, 32], "cours": [3, 58, 65], "import": [3, 32, 40, 43], "reduc": [3, 16, 40, 54, 71, 77], "weight": 3, "overlook": 3, "As": [3, 19, 40, 52, 93], "arena": [3, 32], "center": [3, 43, 52], "mass": 3, "rare": 3, "directli": [3, 13, 32, 41, 43, 54], "abov": [3, 10, 23, 32, 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78, 79, 80, 88], "In": [3, 15, 17, 19, 40, 50, 51, 84, 89], "close": [3, 23, 48, 50, 54, 63, 64, 72], "loop": [3, 23, 25, 48, 50, 54, 63, 64, 67, 72, 92], "act": [3, 84], "upon": 3, "optogenet": [3, 26], "stimul": [3, 4, 5, 22, 28, 29, 38, 39, 54, 61, 71, 72, 81, 83, 93], "area": [3, 43, 83], "everi": [3, 28, 31, 40, 51, 80, 88], "certain": 3, "event": [3, 9, 10, 50, 72], "detect": [3, 15, 20, 25, 31, 42, 44, 54], "describ": [3, 19, 32, 34, 35, 36, 37, 38, 40, 43, 62, 65, 93], "much": [3, 32], "pass": [3, 15, 20, 28, 31, 80], "physic": [3, 15, 50, 80, 83, 93], "respons": [3, 23, 64, 78, 79, 80, 83], "short": [3, 16, 43], "user": [3, 9, 10, 19, 20, 23, 42, 52, 54, 65, 78, 79, 80, 83, 93], "respond": [3, 54, 71, 81], "timescal": 3, "biolog": 3, "integr": [3, 4, 39, 56, 82, 83], "neuron": 3, "reli": 3, "Or": 3, "sourc": [3, 9, 10, 14, 15, 16, 17, 19, 20, 21, 23, 24, 25, 27, 28, 29, 30, 31, 40, 43, 50, 52, 55, 56, 66, 67, 68, 70, 72, 73, 74, 75, 76, 77, 78, 79, 80, 82, 83, 84, 85, 89, 90], 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35, 36, 37, 38, 67, 68, 69, 70, 72, 73, 74, 75, 77, 80, 82, 84, 85], "100": [14, 16, 17, 32, 40, 50, 68, 70, 74, 75, 77, 93], "hz": [14, 28, 30, 32, 38, 68, 69, 73, 74, 93], "rate": [14, 20, 21, 23, 24, 27, 28, 30, 32, 38, 68, 73, 74, 80, 93], "sensor": [14, 27, 31, 39, 40, 54, 61, 62, 68, 75, 77, 85, 88], "fusion": [14, 68], "ndof": [14, 68], "hardcod": [14, 68], "depend": [14, 15, 17, 19, 20, 21, 23, 24, 25, 27, 28, 30, 31, 40, 43, 50, 56, 68, 80, 93], "address": [14, 15, 16, 17, 18, 19, 20, 21, 23, 24, 25, 26, 27, 28, 29, 30, 31, 40, 51], "effect": [14, 15, 16, 17, 18, 19, 20, 21, 23, 24, 25, 26, 27, 28, 29, 30, 31, 40, 43, 67], "por": [14, 15, 16, 17, 18, 19, 20, 21, 23, 24, 25, 26, 27, 28, 29, 30, 31], "0x00": [14, 16, 17, 18, 19, 20, 21, 23, 24, 25, 26, 27, 28, 29, 30, 31, 40, 92, 93], "r": [14, 15, 16, 17, 18, 19, 20, 21, 23, 24, 25, 26, 27, 28, 29, 30, 31, 43, 93], "w": [14, 15, 16, 17, 18, 19, 20, 21, 23, 24, 25, 26, 27, 28, 29, 30, 31, 43, 93], "none": [14, 15, 16, 17, 18, 19, 20, 21, 23, 24, 25, 26, 27, 28, 29, 30, 31, 68, 69, 72, 73, 74, 75, 76, 77, 78, 79, 80, 82, 83, 85, 93], "lsb": [14, 15, 17, 18, 19, 20, 21, 23, 24, 25, 27, 28, 29, 30, 31, 82], "disabl": [14, 15, 17, 18, 19, 20, 21, 23, 24, 25, 27, 28, 30, 31, 51, 69, 71, 81], "stream": [14, 15, 17, 19, 20, 21, 23, 24, 25, 27, 28, 30, 31, 40, 61, 62, 65, 67, 68, 70, 72, 73, 74, 75, 77, 78, 79, 80, 82, 83, 85, 89, 90, 91, 92, 93], "0x0": [14, 15, 17, 19, 20, 21, 23, 24, 25, 27, 28, 29, 30, 31], "0x1": [14, 15, 17, 19, 20, 21, 23, 24, 25, 27, 28, 29, 30, 31], "sign": [14, 17, 52, 67, 82, 83], "except": [14, 76], "calibr": [14, 25, 32], "last": 14, "byte": [14, 25, 80, 93], "convers": [14, 28, 67, 82, 83], "euler": 14, "angl": 14, "tait": 14, "bryan": 14, "formal": 14, "yaw": 14, "360": 14, "degre": 14, "roll": 14, "180": 14, "pitch": 14, "90": 14, "circ": 14, "16": [14, 15, 17, 19, 23, 27, 28, 30, 32, 35, 38, 67, 82, 83, 93], "quaternion": 14, "14": [14, 15, 17, 28, 36, 55, 67, 93], "graviti": 14, 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40], "6x": 19, "bright": [19, 70, 75, 77], "occur": [19, 28, 42, 70, 78, 79, 93], "simpl": [19, 22, 39, 40, 43, 56, 78, 79, 91, 92], "repres": 19, "bank": 19, "down": [19, 20, 43, 60, 80, 83], "pnn": 19, "recoveri": [19, 28, 29, 38, 83], "clk": [19, 23], "sclk": 19, "dat": 19, "cmd": [19, 52], "sw": 19, "0b00": 19, "shift": [19, 25], "slow": 19, "0b01": 19, "initi": [19, 55, 92, 93], "slow1": 19, "slow0": 19, "desir": [19, 32, 83], "next": [19, 39, 53, 78, 79, 83], "0b10": 19, "0b11": 19, "critic": 19, "apsect": 19, "defin": [19, 20, 25, 28, 30, 31, 32, 40, 83, 84, 93], "acq": 19, "done": [19, 43, 51, 53, 54], "na": [19, 40], "brigh": 19, "dimmest": 19, "brightest": 19, "pll": [19, 20], "good": [19, 43, 50, 71, 78, 79, 90, 91], "direciton": 19, "ledmod": 19, "0x0003": 19, "ledlvl": 19, "0x0007": 19, "dertermin": 19, "increas": [19, 28, 32, 43, 50, 54, 71, 72, 80, 93], "linearli": [19, 26], "harpconf": 19, "gpiodir": 19, "configuraiton": 19, "23": [20, 93], "monitor": [20, 22, 28, 74], 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"unlock": 20, "period": [21, 24, 52, 68, 71, 73, 74, 75, 77, 81, 85], "aliv": 21, "clk_div": [21, 23, 24], "clk_hz": [21, 23, 24], "hb_hz": [21, 23, 24], "divid": [21, 23, 24, 74], "ratio": [21, 23, 24, 43], "minimum": [21, 23, 24, 42, 83], "10e6": [21, 23, 24], "calcul": [21, 23, 24, 31, 74], "leaf": 22, "regist": [22, 32, 68, 80, 83, 88, 92, 93], "heartbeat": [22, 23, 73, 93], "test": [22, 25, 30, 32, 64, 80, 92, 93], "memori": [22, 40, 51, 74, 83, 93], "fmc": [22, 42, 48, 50, 54, 67, 69, 70, 72, 93], "bno055": [22, 32, 34, 35, 36, 37, 61, 62, 68, 76], "rhd2164": [22, 32, 61, 82], "rhs2116": [22, 39, 42, 83, 84, 93], "hs64": [22, 71, 81], "ts4231": [22, 32, 34, 61, 85], "arrai": [22, 32, 38, 85, 90], "raw": [22, 67, 75, 76, 77, 80, 82, 83, 85, 88, 93], "test0": 22, "27": [23, 55, 93], "world": [23, 83], "latenc": [23, 32, 50, 54, 64, 67, 78, 79, 80, 82, 83, 93], "settabl": 23, "stress": 23, "dt0h16_word": 23, "increment": [23, 78, 79], "enough": [23, 24, 43], "satisfi": 23, "dt0h16": 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[31, "host-to-device-data-frames"]], "DS90UB9X Raw Device": [[15, "ds90ub9x-raw-device"]], "Managed Registers": [[15, "managed-registers"], [15, "id1"], [25, "managed-registers"], [25, "id1"], [27, "managed-registers"], [27, "id1"], [28, "managed-registers"], [28, "id1"]], "Unmanaged Registers": [[15, "unmanaged-registers"], [25, "unmanaged-registers"], [25, "id2"], [27, "unmanaged-registers"], [27, "id2"], [28, "unmanaged-registers"], [28, "id2"]], "HS64 Electrical Stimulator": [[16, "hs64-electrical-stimulator"]], "HS64 Electrical Stimulator Registers": [[16, "estim-hs64-regs"]], "FMC Host Analog IO Device": [[17, "fmc-host-analog-io-device"]], "FMC Host Clock Output Device": [[18, "fmc-host-clock-output-device"]], "FMC Host Digital IO Device": [[19, "fmc-host-digital-io-device"]], "Breakout to Host Serialization": [[19, "breakout-to-host-serialization"]], "Host to Breakout Serialization": [[19, "host-to-breakout-serialization"]], "FMC Link Controller": [[20, "fmc-link-controller"]], "Heartbeat": [[21, "heartbeat"]], "ONI Datasheets": [[22, "oni-datasheets"]], "Load Test Device": [[23, "load-test-device"]], "Memory Usage Monitor": [[24, "memory-usage-monitor"]], "Neuropixels V1": [[25, "neuropixels-v1"]], "HS64 Optical Stimulator": [[26, "hs64-optical-stimulator"]], "HS64 Optical Stimulator Registers": [[26, "ostim-hs64-regs"]], "RHD2164": [[27, "rhd2164"]], "RHS2116": [[28, "rhs2116"]], "RHS2116 Trigger": [[29, "rhs2116-trigger"]], "Test0 Device": [[30, "test0-device"]], "TS4231 Array for Vive V1 Base Stations": [[31, "ts4231-array-for-vive-v1-base-stations"]], "Headstage-64": [[32, "headstage-64"]], "Data Link Serialization": [[32, "data-link-serialization"], [38, "data-link-serialization"]], "Electrophysiology & Auxiliary Analog Inputs": [[32, "electrophysiology-auxiliary-analog-inputs"]], "3D Position Tracking": [[32, "d-position-tracking"]], "Todo": [[32, "id2"], [33, "id1"], [49, "id1"], [59, "id1"], [59, "id2"], [63, "id1"], [78, "id1"], [79, "id1"]], "3D 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"coaxial-data-serialization-power"]], "Power": [[40, "power"]], "DS90UB933/4 Communication Protocols": [[40, "ds90ub933-4-communication-protocols"]], "Data Serialization": [[40, "data-serialization"]], "Register Configuration": [[40, "register-configuration"]], "Setting Headstage Voltage": [[42, "setting-headstage-voltage"]], "Measuring Headstage Voltage": [[42, "measuring-headstage-voltage"]], "GND and Vcoax location": [[42, "id1"]], "Making Coaxial Tethers": [[43, "making-coaxial-tethers"]], "Which Coaxial Cable?": [[43, "which-coaxial-cable"]], "Assembly Guide": [[43, "assembly-guide"]], "Headstage Side": [[43, "headstage-side"]], "Host/Commutator Side": [[43, "host-commutator-side"]], "3D-Tracking Lighthouses": [[44, "d-tracking-lighthouses"]], "Miniscopes": [[46, "miniscopes"]], "UCLA Miniscope V3": [[46, "ucla-miniscope-v3"]], "UCLA Miniscope V4": [[46, "ucla-miniscope-v4"]], "PCIe Bracket Assembly": [[47, "pcie-bracket-assembly"]], "Materials": [[47, "materials"]], "Bill of 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"term-Can-I-use-my-older-Intan-headstages-with-the-system"]], "how is oni different than onix?": [[56, "term-How-is-ONI-different-than-ONIX"]], "i have existing acquisition hardware. can i can use your api and software to acquire data from it?": [[56, "term-I-have-existing-acquisition-hardware.-Can-I-can-use-your-API-and-software-to-acquire-data-from-it"]], "i have existing acquisition software. can i integrate support for onix hardware using your api?": [[56, "term-I-have-existing-acquisition-software.-Can-I-integrate-support-for-ONIX-hardware-using-your-API"]], "is onix hardware available for purchase?": [[56, "term-Is-ONIX-hardware-available-for-purchase"]], "what does onix stand for?": [[56, "term-What-does-ONIX-stand-for"]], "what is onix?": [[56, "term-What-is-ONIX"]], "what is open ephys?": [[56, "term-What-is-Open-Ephys"]], "where do i get help when using the system?": [[56, "term-Where-do-I-get-help-when-using-the-system"]], "why is there no open ephys gui plugin for onix hardware?": [[56, "term-Why-is-there-no-Open-Ephys-GUI-plugin-for-ONIX-hardware"]]}})
\ No newline at end of file