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This build is based on
e0f5db3.

This commit was created by the following CI build and job:
https://github.com/biocypher/biochatter-paper/commit/e0f5db3e66336eb8747054cb7d32b3c1edce029e/checks
https://github.com/biocypher/biochatter-paper/actions/runs/7914511338

README.md

@@ -1,7 +1,7 @@
 # Output directory containing the formatted manuscript
 
 The [`gh-pages`](https://github.com/biocypher/biochatter-paper/tree/gh-pages) branch hosts the contents of this directory at <https://biocypher.github.io/biochatter-paper/>.
-The permalink for this webpage version is <https://biocypher.github.io/biochatter-paper/v/0b6f149728de443d9cb2c24cced7c765da9cff02/>.
+The permalink for this webpage version is <https://biocypher.github.io/biochatter-paper/v/e0f5db3e66336eb8747054cb7d32b3c1edce029e/>.
 To redirect to the permalink for the latest manuscript version at anytime, use the link <https://biocypher.github.io/biochatter-paper/v/freeze/>.
 
 ## Files
@@ -35,4 +35,4 @@ Verifying timestamps with the `ots verify` command requires running a local bitc
 ## Source
 
 The manuscripts in this directory were built from
-[`0b6f149728de443d9cb2c24cced7c765da9cff02`](https://github.com/biocypher/biochatter-paper/commit/0b6f149728de443d9cb2c24cced7c765da9cff02).
+[`e0f5db3e66336eb8747054cb7d32b3c1edce029e`](https://github.com/biocypher/biochatter-paper/commit/e0f5db3e66336eb8747054cb7d32b3c1edce029e).

index.html

@@ -124,8 +124,8 @@
   <meta name="dc.date" content="2024-02-15" />
   <meta name="citation_publication_date" content="2024-02-15" />
   <meta property="article:published_time" content="2024-02-15" />
-  <meta name="dc.modified" content="2024-02-15T10:31:15+00:00" />
-  <meta property="article:modified_time" content="2024-02-15T10:31:15+00:00" />
+  <meta name="dc.modified" content="2024-02-15T10:32:05+00:00" />
+  <meta property="article:modified_time" content="2024-02-15T10:32:05+00:00" />
   <meta name="dc.language" content="en-UK" />
   <meta name="citation_language" content="en-UK" />
   <meta name="dc.relation.ispartof" content="Manubot" />
@@ -169,9 +169,9 @@
   <meta name="citation_fulltext_html_url" content="https://biocypher.github.io/biochatter-paper/" />
   <meta name="citation_pdf_url" content="https://biocypher.github.io/biochatter-paper/manuscript.pdf" />
   <link rel="alternate" type="application/pdf" href="https://biocypher.github.io/biochatter-paper/manuscript.pdf" />
-  <link rel="alternate" type="text/html" href="https://biocypher.github.io/biochatter-paper/v/0b6f149728de443d9cb2c24cced7c765da9cff02/" />
-  <meta name="manubot_html_url_versioned" content="https://biocypher.github.io/biochatter-paper/v/0b6f149728de443d9cb2c24cced7c765da9cff02/" />
-  <meta name="manubot_pdf_url_versioned" content="https://biocypher.github.io/biochatter-paper/v/0b6f149728de443d9cb2c24cced7c765da9cff02/manuscript.pdf" />
+  <link rel="alternate" type="text/html" href="https://biocypher.github.io/biochatter-paper/v/e0f5db3e66336eb8747054cb7d32b3c1edce029e/" />
+  <meta name="manubot_html_url_versioned" content="https://biocypher.github.io/biochatter-paper/v/e0f5db3e66336eb8747054cb7d32b3c1edce029e/" />
+  <meta name="manubot_pdf_url_versioned" content="https://biocypher.github.io/biochatter-paper/v/e0f5db3e66336eb8747054cb7d32b3c1edce029e/manuscript.pdf" />
   <meta property="og:type" content="article" />
   <meta property="twitter:card" content="summary_large_image" />
   <link rel="icon" type="image/png" sizes="192x192" href="https://manubot.org/favicon-192x192.png" />
@@ -188,9 +188,9 @@ <h1 class="title">A Platform for the Biomedical Application of Large Language Mo
 </header>
 <p><small><em>
 This manuscript
-(<a href="https://biocypher.github.io/biochatter-paper/v/0b6f149728de443d9cb2c24cced7c765da9cff02/">permalink</a>)
+(<a href="https://biocypher.github.io/biochatter-paper/v/e0f5db3e66336eb8747054cb7d32b3c1edce029e/">permalink</a>)
 was automatically generated
-from <a href="https://github.com/biocypher/biochatter-paper/tree/0b6f149728de443d9cb2c24cced7c765da9cff02">biocypher/biochatter-paper@0b6f149</a>
+from <a href="https://github.com/biocypher/biochatter-paper/tree/e0f5db3e66336eb8747054cb7d32b3c1edce029e">biocypher/biochatter-paper@e0f5db3</a>
 on February 15, 2024.
 </em></small></p>
 <h2 id="authors">Authors</h2>
@@ -298,7 +298,7 @@ <h2 id="abstract">Abstract</h2>
 To facilitate interfacing with LLMs in the biomedical space, while at the same time safeguarding their functionalities through sensible constraints, we propose a dedicated, open-source framework: BioChatter.
 Based on open-source software packages, we synergise the many functionalities that are currently developing around LLMs, such as knowledge integration / retrieval-augmented generation, model chaining, and benchmarking, resulting in an easy-to-use and inclusive framework for application in many use cases of biomedicine.
 We focus on robust and user-friendly implementation, including ways to deploy privacy-preserving local open-source LLMs.
-We demonstrate use cases via two multi-purpose web apps (https://chat.biocypher.org), and provide documentation, support, and an open community.</p>
+We demonstrate use cases via two multi-purpose web apps (<a href="https://chat.biocypher.org">https://chat.biocypher.org</a>), and provide documentation, support, and an open community.</p>
 <h2 id="introduction">Introduction</h2>
 <p>Despite technological advances, understanding biological and biomedical systems still poses major challenges <span class="citation" data-cites="195HIa77n 1AZn5l2ah">[<a href="#ref-195HIa77n" role="doc-biblioref">1</a>,<a href="#ref-1AZn5l2ah" role="doc-biblioref">2</a>]</span>.
 We measure more and more data points with ever-increasing resolution to such a degree that their analysis and interpretation have become the bottleneck for their exploitation <span class="citation" data-cites="1AZn5l2ah">[<a href="#ref-1AZn5l2ah" role="doc-biblioref">2</a>]</span>.