deploy: 215184d

Author: masoudzp

404.html

@@ -460,6 +460,8 @@ <h1>404 - Not found</h1>
 
         <script src="/js/extra.js"></script>
 
+        <script src="https://cdn.jsdelivr.net/npm/mathjax@3/es5/tex-mml-chtml.js"></script>
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FAQ/index.html

@@ -418,13 +418,14 @@ <h3 id="how-can-i-use-my-own-patient-data"><strong>How can I use my own patient
 <hr />
 <h3 id="can-i-use-other-open-source-software-for-dose-calculation-and-portpy-for-planning-optimization"><strong>Can I use other open-source software for dose calculation and PortPy for planning optimization?</strong><a class="headerlink" href="#can-i-use-other-open-source-software-for-dose-calculation-and-portpy-for-planning-optimization" title="Permanent link">&para;</a></h3>
 <p>One of PortPy’s goals is to generate <strong>clinically usable, deliverable plans</strong> with dose calculations<br />
-that match commercial TPS accuracy. Therefore, we currently do <strong>not</strong> support integrating<br />
-other open-source dose engines into PortPy.</p>
-<p>However, users are welcome to use other software for dose calculation and PortPy solely for<br />
-optimization <strong>if clinical-level dose accuracy is not required</strong> for their use case.</p>
+that match commercial TPS accuracy. This focus makes PortPy not only a clinically relevant platform but also a 
+powerful research tool for benchmarking optimization algorithms and their resultant treatment plans against the 
+clinical plans. Therefore, we currently do <strong>not</strong> support integrating other open-source dose engines into PortPy. 
+However, users are welcome to use PortPy solely for planning optimization and perform dose calculations using other 
+software, provided this setup meets the needs of their research or application.</p>
 <hr />
 <h3 id="can-i-do-proton-therapy-optimization-with-portpy"><strong>Can I do proton therapy optimization with PortPy?</strong><a class="headerlink" href="#can-i-do-proton-therapy-optimization-with-portpy" title="Permanent link">&para;</a></h3>
-<p>Currently, PortPy only supports <strong>photon therapy optimization</strong>.<br />
+<p>PortPy currently only supports <strong>photon planning optimization</strong>.<br />
 Proton therapy support is expected to be released in 2026.</p>
 <hr />
 <h3 id="i-have-a-medical-physics-background-but-not-in-mathematical-optimization-can-i-still-use-portpy"><strong>I have a medical physics background but not in mathematical optimization. Can I still use PortPy?</strong><a class="headerlink" href="#i-have-a-medical-physics-background-but-not-in-mathematical-optimization-can-i-still-use-portpy" title="Permanent link">&para;</a></h3>
@@ -527,6 +528,8 @@ <h3 id="i-have-an-engineeringsoftware-development-background-can-i-contribute-to
 
         <script src="../js/extra.js"></script>
 
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api/portpy/index.html

@@ -481,6 +481,8 @@ <h1>Portpy</h1>
 
         <script src="../../js/extra.js"></script>
 
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contact_us/index.html

@@ -414,7 +414,7 @@ <h1>Contact Us</h1>
    Gourav Jhanwar — <a href="mailto:jhanwarg@mskcc.org">jhanwarg@mskcc.org</a></p>
 </li>
 <li>
-<p>For general inquiries, contact the PI:<br />
+<p>For general inquiries (e.g., colaboration, tutorial for your group, licensing), contact the PI:<br />
    Masoud Zarepisheh — <a href="mailto:zarepism@mskcc.org">zarepism@mskcc.org</a></p>
 </li>
 </ul>
@@ -505,6 +505,8 @@ <h1>Contact Us</h1>
 
         <script src="../js/extra.js"></script>
 
+        <script src="https://cdn.jsdelivr.net/npm/mathjax@3/es5/tex-mml-chtml.js"></script>
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extensions/compressRTP/index.html

@@ -481,6 +481,8 @@ <h1>compressRTP</h1>
 
         <script src="../../js/extra.js"></script>
 
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extensions/echo_vmat/index.html

@@ -481,6 +481,8 @@ <h1>Echo vmat</h1>
 
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extensions/overview/index.html

@@ -481,6 +481,8 @@ <h1>Overview</h1>
 
         <script src="../../js/extra.js"></script>
 
+        <script src="https://cdn.jsdelivr.net/npm/mathjax@3/es5/tex-mml-chtml.js"></script>
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images/Linac_infMatrix.png

@@ -310,9 +310,9 @@
     <ul class="md-nav__list" data-md-component="toc" data-md-scrollfix>
 
         <li class="md-nav__item">
-  <a href="#main-features" class="md-nav__link">
+  <a href="#portpy-main-features" class="md-nav__link">
     <span class="md-ellipsis">
-      🚀 Main Features
+      🚀 PortPy Main Features
     </span>
   </a>
 
@@ -450,9 +450,9 @@
     <ul class="md-nav__list" data-md-component="toc" data-md-scrollfix>
 
         <li class="md-nav__item">
-  <a href="#main-features" class="md-nav__link">
+  <a href="#portpy-main-features" class="md-nav__link">
     <span class="md-ellipsis">
-      🚀 Main Features
+      🚀 PortPy Main Features
     </span>
   </a>
 
@@ -487,19 +487,20 @@
 
 
 <h1 id="what-is-portpy"><strong>What is PortPy?</strong><a class="headerlink" href="#what-is-portpy" title="Permanent link">&para;</a></h1>
-<p><img src="./images/Linac.gif" align="right" alt="Radiotherapy 101" width="30%" height="30%" margin-right="10px"></p>
+<p><img src="./images/Linac.gif" align="right" alt="Radiotherapy 101" width="40%" height="40%" margin-right="10px"></p>
 <p><strong>PortPy</strong>, short for <strong>P</strong>lanning and <strong>O</strong>ptimization for <strong>R</strong>adiation <strong>T</strong>herapy, is an open-source Python library 
 designed to advance cancer radiotherapy treatment planning optimization. Radiotherapy plays a critical role in 
 treating over half of all cancer patients, whether as a standalone treatment or in combination with surgery, 
 chemotherapy, or immunotherapy. It works by delivering high-energy radiation beams to tumors, aiming to destroy 
 cancerous cells while minimizing damage to the surrounding healthy tissues. 
-Given that each patient has a unique anatomy, it is essential to customize the 
-radiation beams' shape, angle, and intensity. The goal is to maximize damage to the 
-tumor while minimizing exposure to healthy surrounding tissues. This challenge translates into modeling and 
-solving large-scale, 
-patient-specific mathematical optimization problems. PortPy aims to accelerate research 
-in this interdisciplinary field by offering <strong>tools</strong>, <strong>baseline algorithms</strong>, and <strong>benhcmark datasets</strong>.</p>
-<h2 id="main-features">🚀 Main Features<a class="headerlink" href="#main-features" title="Permanent link">&para;</a></h2>
+Since every patient has a unique anatomy, the radiation beam’s shape, angle, and intensity must be carefully 
+customized. The objective is to maximize tumor dose while minimizing exposure to nearby organs at risk—a 
+challenge that translates into solving large-scale, patient-specific mathematical optimization problems.</p>
+<p>PortPy aims to accelerate research in this interdisciplinary field by providing tools and algorithms 
+to model and solve these complex optimization problems, as well as to visualize and quantitatively 
+evaluate the resulting treatment plans (see image below).</p>
+<p><img src="./images/Visualization.png" align="center" width="100%" height="70%"></p>
+<h2 id="portpy-main-features">🚀 PortPy Main Features<a class="headerlink" href="#portpy-main-features" title="Permanent link">&para;</a></h2>
 <ul>
 <li>
 <p><strong>IMRT/VMAT Planning Optimization (including AI):</strong><br />
@@ -632,6 +633,8 @@ <h2 id="news">📢 News<a class="headerlink" href="#news" title="Permanent link"
 
         <script src="js/extra.js"></script>
 
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