scverse · flying-sheep · Aug 6, 2026 · Aug 6, 2026 · Aug 6, 2026 · Aug 6, 2026
diff --git a/.gitmodules b/.gitmodules
diff --git a/.readthedocs.yml b/.readthedocs.yml
@@ -1,7 +1,5 @@
 # https://docs.readthedocs.io/en/stable/config-file/v2.html
 version: 2
-submodules:
-  include: all
 build:
   os: ubuntu-24.04
   tools:

diff --git a/docs/dev/documentation.md b/docs/dev/documentation.md
@@ -22,15 +22,7 @@ When asked for “Issue number (`+` if none)”, enter the *PR number* instead.
 Once you've added a new function to the documentation, you'll need to make sure there is a link somewhere in the documentation site pointing to it.
 This should be added to `docs/api.md` under a relevant heading.
 
-For tutorials and more in depth examples, consider adding a notebook to the [scanpy-tutorials][] repository.
-
-The tutorials are tied to this repository via a submodule.
-To update the submodule, run `git submodule update --remote` from the root of the repository.
-Subsequently, commit and push the changes in a PR.
-This should be done before each release to ensure the tutorials are up to date.
-
 [towncrier create]: https://towncrier.readthedocs.io/en/stable/tutorial.html#creating-news-fragments
-[scanpy-tutorials]: https://github.com/scverse/scanpy-tutorials/
 
 ## docstrings format
 

diff --git a/docs/extensions/canonical_tutorial.py b/docs/extensions/canonical_tutorial.py
diff --git a/docs/how-to/cell-cycle.ipynb b/docs/how-to/cell-cycle.ipynb
diff --git a/docs/how-to/cell-cycle.ipynb b/docs/how-to/cell-cycle.ipynb
diff --git a/docs/how-to/knn-transformers.ipynb b/docs/how-to/knn-transformers.ipynb
diff --git a/docs/how-to/knn-transformers.ipynb b/docs/how-to/knn-transformers.ipynb
diff --git a/docs/how-to/plotting-with-marsilea.ipynb b/docs/how-to/plotting-with-marsilea.ipynb
diff --git a/docs/how-to/plotting-with-marsilea.ipynb b/docs/how-to/plotting-with-marsilea.ipynb
diff --git a/docs/tutorials/basics/clustering-2017.ipynb b/docs/tutorials/basics/clustering-2017.ipynb
diff --git a/docs/tutorials/basics/clustering-2017.ipynb b/docs/tutorials/basics/clustering-2017.ipynb
diff --git a/docs/tutorials/basics/clustering.ipynb b/docs/tutorials/basics/clustering.ipynb
diff --git a/docs/tutorials/basics/clustering.ipynb b/docs/tutorials/basics/clustering.ipynb
diff --git a/docs/tutorials/basics/integrating-data-using-ingest.ipynb b/docs/tutorials/basics/integrating-data-using-ingest.ipynb
diff --git a/docs/tutorials/basics/integrating-data-using-ingest.ipynb b/docs/tutorials/basics/integrating-data-using-ingest.ipynb
diff --git a/docs/tutorials/experimental/dask.ipynb b/docs/tutorials/experimental/dask.ipynb