software.html

---
layout: page
title: Open Source Tools
subtitle: Software and data for transport, formulation, and drug delivery research
description: Open-source software and data from the Brunaugh Lab for transport, formulation, and drug delivery research.
permalink: /software/
---

<p>We develop public research software for measurement, analysis, and reproducible scientific inference. Source code, documentation, examples, and versioned releases are available through the <a href="https://github.com/Brunaugh-Lab">Brunaugh Lab GitHub organization</a>.</p>

<aside class="software-policy" aria-labelledby="software-policy-title">
  <p class="software-policy-label" id="software-policy-title">Living research software</p>
  <p>These tools are continuously refined as methods are tested, limitations are identified, and new capabilities are validated. A public repository does not imply that every possible workflow is supported. For reproducible use, record the release version or commit, review the repository's scientific scope and validation notes, and cite an archived release when one is available.</p>
</aside>

<h2>Public Research Software</h2>

<div class="tool-grid">
{% assign public_software = site.data.software | where: "category", "software" %}
{% for tool in public_software %}
  <article class="tool-card tool-card--compact">
    <div class="tool-card-header">
      <span class="tool-status tool-status--{{ tool.status_class }}">{{ tool.status }}</span>
      <span class="tool-language">{{ tool.language }}</span>
    </div>
    <h3>{{ tool.name }}</h3>
    <p class="tool-subtitle">{{ tool.subtitle }}</p>
    <p>{{ tool.description }}</p>
    <p class="tool-scope"><strong>Current scope:</strong> {{ tool.scope }}</p>
    <div class="tool-links tool-links--inline">
      <a href="{{ tool.repo_url }}">GitHub <span aria-hidden="true">↗</span></a>
      {% if tool.release_url %}<a href="{{ tool.release_url }}">Release <span aria-hidden="true">↗</span></a>{% endif %}
      {% if tool.doi_url %}<a href="{{ tool.doi_url }}">Archived DOI <span aria-hidden="true">↗</span></a>{% endif %}
      {% if tool.publication_url %}<a href="{{ tool.publication_url }}">Paper <span aria-hidden="true">↗</span></a>{% endif %}
      {% if tool.data_url %}<a href="{{ tool.data_url }}">Data <span aria-hidden="true">↗</span></a>{% endif %}
    </div>
  </article>
{% endfor %}
</div>

<h2>Open Measurement Standards</h2>

{% assign public_docs = site.data.software | where: "category", "documentation" %}
{% for tool in public_docs %}
<article class="tool-card tool-card--documentation">
  <div class="tool-card-header">
    <span class="tool-status tool-status--{{ tool.status_class }}">{{ tool.status }}</span>
    <span class="tool-language">{{ tool.language }}</span>
  </div>
  <h3>{{ tool.name }}</h3>
  <p class="tool-subtitle">{{ tool.subtitle }}</p>
  <p>{{ tool.description }}</p>
  <p class="tool-scope"><strong>Boundary:</strong> {{ tool.scope }}</p>
  <div class="tool-links tool-links--inline">
    <a href="{{ tool.repo_url }}">Browse documentation <span aria-hidden="true">↗</span></a>
  </div>
</article>
{% endfor %}

<h2 class="coming-soon-heading">In Development</h2>

<div class="tool-card tool-card-soon">
  <h3>bioHLB Toolkit</h3>
  <p>A sequence-informed framework for studying and predicting how proteins partition at biological interfaces. The project is being developed to connect molecular identity with adsorption behavior, competitive surface assembly, and downstream biological fate.</p>
  <p><em>Methods and code will be released after the external-use boundary and validation requirements are defined.</em></p>
</div>