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<!DOCTYPE html>
<html>
<head>
<meta charset="utf-8" />
<!-- Meta tags for social media banners, these should be filled in appropriatly as they are your "business card" -->
<!-- Replace the content tag with appropriate information -->
<meta
name="description"
content="The Denario project: Deep knowledge AI agents for scientific discovery"
/>
<meta property="og:title" content="Denario Project page" />
<meta
property="og:description"
content="The Denario project: Deep knowledge AI agents for scientific discovery"
/>
<meta
property="og:url"
content="https://astropilot-ai.github.io/DenarioPaperPage/"
/>
<!-- Path to banner image, should be in the path listed below. Optimal dimenssions are 1200X630-->
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<meta
name="keywords"
content="denario, multi-agent systems, scientific research, AI, machine learning"
/>
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<title>Denario</title>
<link rel="icon" type="image/x-icon" href="static/images/favicon.ico" />
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<script src="static/js/index.js"></script>
</head>
<body>
<section class="hero">
<div class="hero-body">
<div class="container is-max-desktop">
<div class="columns is-centered">
<div class="column has-text-centered">
<h1 class="title is-1 publication-title">
The Denario project:<br />
Deep knowledge AI agents for scientific discovery
</h1>
<div class="is-size-5 publication-authors">
<!-- Paper authors -->
<span class="author-block">
<a href="https://borisbolliet.github.io/" target="_blank"
>Boris Bolliet</a
><sup>*</sup>,
</span>
<span class="author-block">
<a href="https://pablovd.github.io/" target="_blank"
>Pablo Villanueva-Domingo</a
><sup>*</sup>,
</span>
<span class="author-block">
<a
href="https://franciscovillaescusa.github.io/"
target="_blank"
>Francisco Villaescusa-Navarro</a
><sup>*</sup>,
</span>
<br />
<span class="author-block">
<a href="https://adrianbayer.github.io/" target="_blank"
>Adrian E. Bayer</a
>,
</span>
<span class="author-block">
<a
href="https://www.bdi.ox.ac.uk/Team/aidan-acquah"
target="_blank"
>Aidan Acquah</a
>,
</span>
<span class="author-block">
<a
href="https://blogs.infosys.com/author/chetana-amancharla"
target="_blank"
>Chetana Amancharla</a
>,
</span>
<span class="author-block">
<a
href="https://www.linkedin.com/in/almog-barzilay-siegal-369330291/?originalSubdomain=il"
target="_blank"
>Almog Barzilay Siegal </a
>,
</span>
<span class="author-block">
<a
href="https://scholar.google.com/citations?user=uiTRXx8AAAAJ&hl=en"
target="_blank"
>Pablo Bermejo</a
>,
</span>
<span class="author-block">
<a
href="https://scholar.google.com/citations?user=hOj9jT4AAAAJ&hl=en"
target="_blank"
>Camille Bilodeau</a
>,
</span>
<span class="author-block">
<a href="https://pablo-cardenas.com/" target="_blank"
>Pablo Cárdenas Ramírez</a
>,
</span>
<span class="author-block">
<a
href="https://www.maths.cam.ac.uk/person/mc2473"
target="_blank"
>Miles Cranmer</a
>,
</span>
<span class="author-block">
<a
href="https://scholar.google.com/citations?user=0A7qXBkAAAAJ&hl=en"
target="_blank"
>Urbano L. França</a
>,
</span>
<span class="author-block">
<a href="https://changhoonhahn.github.io/" target="_blank"
>ChangHoon Hahn</a
>,
</span>
<span class="author-block">
<a
href="https://jiangyanfei1986.wixsite.com/yanfei-homepage"
target="_blank"
>Yan-Fei Jiang</a
>,
</span>
<span class="author-block">
<a
href="https://www.icrea.cat/community/icreas/17566/raul-jimenez-tellado/"
target="_blank"
>Raul Jimenez</a
>,
</span>
<span class="author-block">
<a
href="https://www.linkedin.com/in/jun-young-lee-8913ba214/?originalSubdomain=kr"
target="_blank"
>Jun-Young Lee</a
>,
</span>
<span class="author-block">
<a
href="https://sites.google.com/view/lerario/home"
target="_blank"
>Antonio Lerario</a
>,
</span>
<span class="author-block">
<a
href="https://scholar.google.com/citations?user=NJdTPhkAAAAJ&hl=en"
target="_blank"
>Osman Mamun</a
>,
</span>
<span class="author-block">
<a
href="https://www.linkedin.com/in/thomas-meier-340721203/"
target="_blank"
>Thomas Meier</a
>,
</span>
<span class="author-block">
<a
href="https://www.simonsfoundation.org/people/anupam-anand-ojha/"
target="_blank"
>Anupam Anand Ojha</a
>,
</span>
<span class="author-block">
<a
href="https://pll.harvard.edu/instructor/pavlos-protopapas"
target="_blank"
>Pavlos Protopapas</a
>,
</span>
<span class="author-block">
<a href="https://www.shimantoroy.com/" target="_blank"
>Shimanto Roy</a
>,
</span>
<span class="author-block">
<a
href="https://www.astro.princeton.edu/~dns/"
target="_blank"
>David N. Spergel</a
>,
</span>
<span class="author-block">
<a href="https://icc.ub.edu/people/778" target="_blank"
>Pedro Tarancón-Álvarez</a
>,
</span>
<span class="author-block">
<a
href="https://blogs.infosys.com/author/ujjwal-tiwari"
target="_blank"
>Ujjwal Tiwari</a
>,
</span>
<span class="author-block">
<a href="https://people.sissa.it/~viel/" target="_blank"
>Matteo Viel</a
>,
</span>
<span class="author-block">
<a href="https://jaywadekar.github.io/" target="_blank"
>Digvijay Wadekar</a
>,
</span>
<span class="author-block">
<a
href="https://scholar.google.com/citations?user=IiSNwnAAAAAJ&hl=en"
target="_blank"
>Chi Wang</a
>,
</span>
<span class="author-block">
<a
href="https://scholar.google.com/citations?user=gR4oz6sAAAAJ&hl=en"
target="_blank"
>Bonny Y. Wang</a
>,
</span>
<span class="author-block">
<a
href="https://www.ast.cam.ac.uk/people/licong.xu"
target="_blank"
>Licong Xu</a
>,
</span>
<span class="author-block">
<a
href="https://en-lifesci.tau.ac.il/profile/yossiy"
target="_blank"
>Yossi Yovel</a
>,
</span>
<span class="author-block">
<a
href="https://www.engineering.cornell.edu/people/shuwen-yue/"
target="_blank"
>Shuwen Yue</a
>,
</span>
<span class="author-block">
<a
href="https://scholar.google.com/citations?user=dAofWR0AAAAJ&hl=en"
target="_blank"
>Wenhan Zhou</a
>,
</span>
<span class="author-block">
<a
href="https://www.simonsfoundation.org/people/qiyao-zhu/"
target="_blank"
>Qiyao Zhu</a
>,
</span>
<span class="author-block">
<a
href="https://sites.google.com/view/sensexlab/team#h.lskhyw5zdqm1"
target="_blank"
>Jiajun Zou</a
>,
</span>
<span class="author-block">
<a
href="https://www.linkedin.com/in/%C3%AD%C3%B1igo-zubeldia-60426ba0/?original_referer=https%3A%2F%2Fwww%2Egoogle%2Ecom%2F&originalSubdomain=uk"
target="_blank"
>Íñigo Zubeldia</a
>
</span>
</div>
<!-- <div class="is-size-5 publication-authors">
<span class="author-block"><sup>1</sup>University of Washington,</span>
<span class="author-block"><sup>2</sup>Google Research</span>
</div> -->
<div class="is-size-5 publication-authors">
<!-- <span class="author-block">Institution Name<br>Conferance name and year</span> -->
<span class="eql-cntrb"
><small
><br /><sup>*</sup>Equal Contribution. Listing order of BB,
PVD, FVN is random.</small
></span
>
</div>
<div class="column has-text-centered">
<div class="publication-links">
<!-- Paper -->
<span class="link-block">
<a
href="https://arxiv.org/abs/2510.26887"
target="_blank"
class="external-link button is-normal is-rounded is-dark"
>
<span class="icon">
<!-- <i class="ai ai-arxiv"></i> -->
<i class="fas fa-file"></i>
</span>
<span>Paper</span>
</a>
</span>
<!-- Github link -->
<span class="link-block">
<a
href="https://github.com/AstroPilot-AI/Denario"
target="_blank"
class="external-link button is-normal is-rounded is-dark"
>
<span class="icon">
<i class="fab fa-github"></i>
</span>
<span>Code</span>
</a>
</span>
<span class="link-block">
<a
href="https://denario.readthedocs.io/en/latest/"
target="_blank"
class="external-link button is-normal is-rounded is-dark"
>
<span class="icon">
<i class="fas fa-book"></i>
</span>
<span>Docs</span>
</a>
</span>
<!-- App -->
<span class="link-block">
<a
href="https://huggingface.co/spaces/astropilot-ai/Denario"
target="_blank"
class="external-link button is-normal is-rounded is-dark"
>
<span class="icon">
<i class="fas fa-rocket"></i>
</span>
<span>App</span>
</a>
</span>
</div>
</div>
</div>
</div>
</div>
</div>
</section>
<!-- Teaser video-->
<!-- <section class="hero teaser">
<div class="container is-max-desktop">
<div class="hero-body">
<video poster="" id="tree" autoplay controls muted loop height="100%">
<source src="static/videos/banner_video.mp4"
type="video/mp4">
</video>
<h2 class="subtitle has-text-centered">
Aliquam vitae elit ullamcorper tellus egestas pellentesque. Ut lacus tellus, maximus vel lectus at, placerat pretium mi. Maecenas dignissim tincidunt vestibulum. Sed consequat hendrerit nisl ut maximus.
</h2>
</div>
</div>
</section> -->
<!-- End teaser video -->
<!-- Paper abstract -->
<section class="section hero is-light">
<div class="container is-max-desktop">
<div class="columns is-centered has-text-centered">
<div class="column is-four-fifths">
<h2 class="title is-3">Abstract</h2>
<div class="content has-text-justified">
<p>
We present Denario, an AI multi-agent system designed to serve
as a scientific research assistant. Denario can perform many
different tasks, such as generating ideas, checking the
literature, developing research plans, writing and executing
code, making plots, and drafting and reviewing a scientific
paper. The system has a modular architecture, allowing it to
handle specific tasks, such as generating an idea, or carrying
out end-to-end scientific analysis using
<a
style="color: hsl(204, 86%, 53%)"
href="https://github.com/CMBAgents/cmbagent"
>cmbagent</a
>
as a deep-research backend. In this work, we describe in detail
Denario and its modules, and illustrate its capabilities by
presenting multiple AI-generated papers generated by it in many
different scientific disciplines such as astrophysics, biology,
biophysics, biomedical informatics, chemistry, material science,
mathematical physics, medicine, neuroscience and planetary
science. Denario also excels at combining ideas from different
disciplines, and we illustrate this by showing a paper that
applies methods from quantum physics and machine learning to
astrophysical data. We report the evaluations performed on these
papers by domain experts, who provided both numerical scores and
review-like feedback. We then highlight the strengths,
weaknesses, and limitations of the current system. Finally, we
discuss the ethical implications of AI-driven research and
reflect on how such technology relates to the philosophy of
science. We publicly release the code at
<a
style="color: hsl(204, 86%, 53%)"
href="https://github.com/AstroPilot-AI/Denario"
>Github</a
>. A Denario demo can also be run directly on the web at
<a
style="color: hsl(204, 86%, 53%)"
href="https://huggingface.co/spaces/astropilot-ai/Denario"
>HugginFace Spaces</a
>, and the full app will be deployed on the cloud.
</p>
</div>
</div>
</div>
</div>
</section>
<!-- End paper abstract -->
<section class="hero is-small is-white">
<div class="hero-body">
<div class="container">
<h2 class="title is-3 has-text-centered">News</h2>
<div class="columns is-centered has-text-centered">
<div class="column is-four-fifths">
<ul>
<li>
<b>December 7, 2025</b> - <a href="https://github.com/CMBAgents/cmbagent">Cmbagent</a>, the research analysis backend of Denario, won a <b>first place award</b> at the <b>NeurIPS 2025 <a href="https://fair-universe.lbl.gov/">Fair Universe Competition</a></b>.
</li>
<li>
<b>November 3, 2025</b> - Version 1.0 is released and the
Denario paper is out at
<a href="https://arxiv.org/pdf/2510.26887">arXiV</a>!
</li>
<li>
<b>October 9, 2025 -</b> A paper fully generated with Denario
has been accepted for publication in the
<a href="https://openreview.net/forum?id=LENY7OWxmN"
>Open Conference of AI Agents for Science 2025</a
>, the 1st open conference with AI as primary authors.
</li>
</ul>
</div>
</div>
</div>
</div>
</section>
<!-- Image carousel -->
<section class="hero is-small is-light">
<div class="hero-body">
<div class="container">
<div id="results-carousel" class="carousel results-carousel">
<div class="item">
<img
class="carousel-img"
src="static/images/DenarioArchitectureDiagram.drawio.pdf.png"
alt="MY ALT TEXT"
/>
<h2 class="subtitle has-text-centered" style="font-weight: bold">
Denario architecture.
</h2>
<div class="subtitle has-text-centered">
These modules are agentic systems that can generate an idea for
a research project, check the literature to validate the novelty
of the idea, develop a plan to carry out the project, implement
the plan by writing and executing code, making plots, and
describing the results, write a scientific paper discussing the
research and showing the plots, and review the paper.
</div>
</div>
<div class="item">
<img
class="carousel-img"
src="static/images/idea.png"
alt="MY ALT TEXT"
/>
<h2 class="subtitle has-text-centered" style="font-weight: bold">
Idea maker-idea hater.
</h2>
<div class="subtitle has-text-centered">
The Idea module consist of two agents: idea maker and idea
hater. The system first calls the idea maker agent, that will
generate an idea given the input text. Next, the idea is sent to
the idea hater, who will critic the generated idea. The idea
maker will then take the input text, the generated idea, and the
critic and will improve the idea. This process is then repeated
several times until the final idea is generated.
</div>
</div>
<div class="item">
<img
class="carousel-img"
src="static/images/literature.png"
alt="MY ALT TEXT"
/>
<h2 class="subtitle has-text-centered" style="font-weight: bold">
Literature.
</h2>
<div class="subtitle has-text-centered">
The literature module evaluates whether an idea is novel by
passing it to a novelty agent, which can classify it as new, not
new, or request more information. If uncertain, the novelty
agent generates queries for the semantic scholar agent, which
retrieves papers until the literature is sufficiently sampled.
If no relevant work is found, the idea is deemed new. Finally, a
summary agent compiles a report explaining the decision and
highlighting key papers.
</div>
</div>
<div class="item">
<img
class="carousel-img"
src="static/images/pc_cmbagent.png"
alt="MY ALT TEXT"
/>
<h2 class="subtitle has-text-centered" style="font-weight: bold">
Planning and control with Cmbagent.
</h2>
<div class="subtitle has-text-centered">
Planning and control implementation of "Deep Research" from
<a
style="color: hsl(204, 86%, 53%)"
href="https://github.com/CMBAgents/cmbagent"
>Cmbagent</a
>. This is the essential orchestration strategy enabling the
research analysis without human-in-the-loop. Additionally, it
can be used for idea generation, method generation and data
pre-processing.
</div>
</div>
<div class="item">
<img
class="carousel-img"
src="static/images/DenarioWritingModule.png"
alt="MY ALT TEXT"
/>
<h2 class="subtitle has-text-centered" style="font-weight: bold">
Denario writing module.
</h2>
<div class="subtitle has-text-centered">
Workflow of the paper writing module. Each node represents an
agent in charge of a task. For instance, the methods node
contains an agent that will write the methods sections
considering the input files.
</div>
</div>
<div class="item">
<img
class="carousel-img"
src="static/images/AppScreenshot.png"
alt="MY ALT TEXT"
/>
<h2 class="subtitle has-text-centered" style="font-weight: bold">
Denario GUI.
</h2>
<div class="subtitle has-text-centered">
Denario can be run through a GUI called DenarioApp. The user can
input a text prompt and select the modules to run, generating a
full research project from scratch or inputing files for the
different required modules. A demo of this app is hosted on
Hugging Face Spaces.
</div>
</div>
</div>
</div>
</div>
</section>
<!-- End image carousel -->
<!-- Youtube video -->
<section class="hero is-small is-white">
<div class="hero-body">
<div class="container">
<h2 class="title is-3 has-text-centered">End to End Research Demo</h2>
<div class="columns is-centered has-text-centered">
<div class="column is-four-fifths">
<div class="publication-video">
<iframe
src="https://www.youtube.com/embed/xD58alMhHKg"
frameborder="0"
allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture; web-share"
allowfullscreen
></iframe>
</div>
</div>
</div>
</div>
</div>
</section>
<!-- End youtube video -->
<!-- Youtube video -->
<section class="hero is-small is-white">
<div class="hero-body">
<div class="container">
<h2 class="title is-3 has-text-centered">Denario Launch Webinar</h2>
<div class="columns is-centered has-text-centered">
<div class="column is-four-fifths">
<div class="publication-video">
<iframe
src="https://www.youtube-nocookie.com/embed/c2J0baJuOXI"
title="Denario Launch Webinar"
frameborder="0"
allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture; web-share"
allowfullscreen
></iframe>
</div>
</div>
</div>
</div>
</div>
</section>
<!-- End youtube video for writing module -->
<!-- Example papers -->
<section class="hero is-small is-light">
<div class="container is-max-desktop">
<div class="columns is-centered has-text-centered">
<h2 class="title is-3"><br />Example papers<br /></h2>
</div>
</div>
<div
class="content has-text-justified"
style="margin-top: 30px; margin-left: 20px"
>
<p>
Here are some example papers generated by Denario in different
scientific fields.
</p>
</div>
<div class="pdf-grid">
<div class="pdf-item">
<h3 class="title is-4">Astrophysics</h3>
<iframe src="static/pdfs/Astrophysics.pdf"></iframe>
</div>
<div class="pdf-item">
<h3 class="title is-4">Biology</h3>
<iframe src="static/pdfs/Biology.pdf"></iframe>
</div>
<div class="pdf-item">
<h3 class="title is-4">Chemistry</h3>
<iframe src="static/pdfs/Chemistry.pdf"></iframe>
</div>
<div class="pdf-item">
<h3 class="title is-4">Material Science</h3>
<iframe src="static/pdfs/Material_science.pdf"></iframe>
</div>
<div class="pdf-item">
<h3 class="title is-4">Medicine</h3>
<iframe src="static/pdfs/Medicine.pdf"></iframe>
</div>
<div class="pdf-item">
<h3 class="title is-4">Physics</h3>
<iframe src="static/pdfs/Turbulence_v2.pdf"></iframe>
</div>
</div>
</section>
<!--End example papers -->
<!--BibTex citation -->
<section class="section" id="BibTeX">
<div class="container is-max-desktop content">
<h2 class="title">BibTeX</h2>
<pre>
<code>
@article{villaescusanavarro2025denarioprojectdeepknowledge,
title={The Denario project: Deep knowledge AI agents for scientific discovery},
author={Francisco Villaescusa-Navarro and Boris Bolliet and Pablo Villanueva-Domingo and Adrian E. Bayer and Aidan Acquah and Chetana Amancharla and Almog Barzilay-Siegal and Pablo Bermejo and Camille Bilodeau and Pablo Cárdenas Ramírez and Miles Cranmer and Urbano L. França and ChangHoon Hahn and Yan-Fei Jiang and Raul Jimenez and Jun-Young Lee and Antonio Lerario and Osman Mamun and Thomas Meier and Anupam A. Ojha and Pavlos Protopapas and Shimanto Roy and David N. Spergel and Pedro Tarancón-Álvarez and Ujjwal Tiwari and Matteo Viel and Digvijay Wadekar and Chi Wang and Bonny Y. Wang and Licong Xu and Yossi Yovel and Shuwen Yue and Wen-Han Zhou and Qiyao Zhu and Jiajun Zou and Íñigo Zubeldia},
year={2025},
eprint={2510.26887},
archivePrefix={arXiv},
primaryClass={cs.AI},
url={https://arxiv.org/abs/2510.26887},
}
@software{Denario_2025,
author = {{Villanueva Domingo}, Pablo and {Villaescusa-Navarro}, Francisco and {Bolliet}, Boris},
title = {Denario: Modular Multi-Agent System for Scientific Research Assistance},
year = {2025},
url = {https://github.com/AstroPilot-AI/Denario},
note = {Available at https://github.com/AstroPilot-AI/Denario},
version = {latest}
}
@software{CMBAGENT_2025,
author = {Boris Bolliet},
title = {CMBAGENT: Open-Source Multi-Agent System for Science},
year = {2025},
url = {https://github.com/CMBAgents/cmbagent},
note = {Available at https://github.com/CMBAgents/cmbagent},
version = {latest}
}
</code>
</pre>
</div>
</section>
<!--End BibTex citation -->
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