remove word repetition

[ci skip]

This build is based on
5df3234.

This commit was created by the following CI build and job:
https://github.com/biocypher/biochatter-paper/commit/5df3234aa3ddd87adf06c071c51aab7b2d732e41/checks
https://github.com/biocypher/biochatter-paper/actions/runs/7939928855

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/336baf0c3f072b3524a425c525ecf0e0b789faa8/>.
+The permalink for this webpage version is <https://biocypher.github.io/biochatter-paper/v/5df3234aa3ddd87adf06c071c51aab7b2d732e41/>.
 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
-[`336baf0c3f072b3524a425c525ecf0e0b789faa8`](https://github.com/biocypher/biochatter-paper/commit/336baf0c3f072b3524a425c525ecf0e0b789faa8).
+[`5df3234aa3ddd87adf06c071c51aab7b2d732e41`](https://github.com/biocypher/biochatter-paper/commit/5df3234aa3ddd87adf06c071c51aab7b2d732e41).

index.html

@@ -124,8 +124,8 @@
   <meta name="dc.date" content="2024-02-17" />
   <meta name="citation_publication_date" content="2024-02-17" />
   <meta property="article:published_time" content="2024-02-17" />
-  <meta name="dc.modified" content="2024-02-17T06:11:42+00:00" />
-  <meta property="article:modified_time" content="2024-02-17T06:11:42+00:00" />
+  <meta name="dc.modified" content="2024-02-17T06:31:27+00:00" />
+  <meta property="article:modified_time" content="2024-02-17T06:31:27+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/336baf0c3f072b3524a425c525ecf0e0b789faa8/" />
-  <meta name="manubot_html_url_versioned" content="https://biocypher.github.io/biochatter-paper/v/336baf0c3f072b3524a425c525ecf0e0b789faa8/" />
-  <meta name="manubot_pdf_url_versioned" content="https://biocypher.github.io/biochatter-paper/v/336baf0c3f072b3524a425c525ecf0e0b789faa8/manuscript.pdf" />
+  <link rel="alternate" type="text/html" href="https://biocypher.github.io/biochatter-paper/v/5df3234aa3ddd87adf06c071c51aab7b2d732e41/" />
+  <meta name="manubot_html_url_versioned" content="https://biocypher.github.io/biochatter-paper/v/5df3234aa3ddd87adf06c071c51aab7b2d732e41/" />
+  <meta name="manubot_pdf_url_versioned" content="https://biocypher.github.io/biochatter-paper/v/5df3234aa3ddd87adf06c071c51aab7b2d732e41/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/336baf0c3f072b3524a425c525ecf0e0b789faa8/">permalink</a>)
+(<a href="https://biocypher.github.io/biochatter-paper/v/5df3234aa3ddd87adf06c071c51aab7b2d732e41/">permalink</a>)
 was automatically generated
-from <a href="https://github.com/biocypher/biochatter-paper/tree/336baf0c3f072b3524a425c525ecf0e0b789faa8">biocypher/biochatter-paper@336baf0</a>
+from <a href="https://github.com/biocypher/biochatter-paper/tree/5df3234aa3ddd87adf06c071c51aab7b2d732e41">biocypher/biochatter-paper@5df3234</a>
 on February 17, 2024.
 </em></small></p>
 <h2 id="authors">Authors</h2>
@@ -376,7 +376,7 @@ <h3 id="prompt-engineering">Prompt Engineering</h3>
 In addition, to facilitate the scaling of prompt engineering, we integrate this framework into the benchmarking pipeline, which enables the automated evaluation of prompt sets as new models are published.</p>
 <h3 id="knowledge-graphs">Knowledge Graphs</h3>
 <p>KGs are a powerful tool to represent and query knowledge in a structured manner.
-With BioCypher <span class="citation" data-cites="tr1XjZ1R">[<a href="#ref-tr1XjZ1R" role="doc-biblioref">15</a>]</span>, we have developed a framework to create KGs from biomedical data in a user-friendly manner while also semantically grounding the data in ontologies.
+With BioCypher <span class="citation" data-cites="tr1XjZ1R">[<a href="#ref-tr1XjZ1R" role="doc-biblioref">15</a>]</span>, we have developed a framework to create KGs from biomedical data in a user-friendly way while also semantically grounding the data in ontologies.
 BioChatter is an extension of the BioCypher ecosystem, elevating its user-friendliness further by allowing natural language interactions with the data; any BioCypher KG is automatically compatible with BioChatter.
 We use information generated in the build process of BioCypher KGs to tune BioChatter’s understanding of the data structures and contents, thereby increasing the efficiency of LLM-based KG querying (see Methods).
 In addition, the ability to connect to any BioCypher KG allows the integration of prior knowledge into the LLM’s retrieval, which can be used to ground the model’s responses in the context of the KG via in-context learning / retrieval-augmented generation, which can facilitate human-AI interaction via symbolic concepts <span class="citation" data-cites="fLS7kvml">[<a href="#ref-fLS7kvml" role="doc-biblioref">7</a>]</span>.