KlugerLab · fra-pcmgf · Apr 7, 2026 · Apr 3, 2026 · Apr 3, 2026 · Apr 3, 2026
diff --git a/.gitignore b/.gitignore
@@ -207,3 +207,4 @@ marimo/_lsp/
 __marimo__/
 
 /_build/
+/locat/_version.py
diff --git a/docs/requirements.txt b/docs/requirements.txt
@@ -3,7 +3,7 @@ numpy>=1.25
 sphinx==8.0.2
 scipy>=1.13
 intersphinx-registry
-myst-parser
+myst-nb >= 1.1
 numpydoc
 pydata-sphinx-theme
 flit_scm
diff --git a/docs/source/conf.py b/docs/source/conf.py
@@ -35,7 +35,7 @@
 
 extensions = [
     'sphinx.ext.autodoc',
-    'myst_parser',
+    'myst_nb',
     'numpydoc',
     'sphinx.ext.extlinks',
     'sphinx.ext.intersphinx',
@@ -64,9 +64,6 @@
     "doc_path": "docs",
 }
 
-html_sidebars = {
-    "examples": []
-}
 
 html_theme_options = {
     "icon_links": [
@@ -87,6 +84,9 @@
 
 plot_include_source = True
 
+# Notebooks: serve pre-executed outputs. Run `make publish-tutorial` in the repro repo before a release.
+nb_execution_mode = "off"
+
 
 def linkcode_resolve(domain, info):
     """

diff --git a/docs/source/examples.rst b/docs/source/examples.rst
diff --git a/docs/source/index.rst b/docs/source/index.rst
@@ -12,7 +12,7 @@ Pages
    :maxdepth: 2
 
    self
-   examples
+   tutorials/index
    reference/modules
 
 

diff --git a/docs/source/reference/locat.plotting_and_other_methods.rst b/docs/source/reference/locat.plotting_and_other_methods.rst
@@ -0,0 +1,7 @@
+locat.plotting_and_other_methods module
+=================================
+
+.. automodule:: locat.plotting_and_other_methods
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/docs/source/reference/locat.postprocessing.rst b/docs/source/reference/locat.postprocessing.rst
@@ -0,0 +1,7 @@
+locat.postprocessing module
+=================================
+
+.. automodule:: locat.postprocessing
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/docs/source/reference/locat.preprocessing.rst b/docs/source/reference/locat.preprocessing.rst
@@ -0,0 +1,7 @@
+locat.preprocessing module
+=================================
+
+.. automodule:: locat.preprocessing
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/docs/source/reference/locat.rst b/docs/source/reference/locat.rst
@@ -14,3 +14,6 @@ Submodules
 
    locat.locat
    locat.locat_result
+   locat.preprocessing
+   locat.postprocessing
+   locat.plotting_and_other_methods
diff --git a/docs/source/tutorials/index.md b/docs/source/tutorials/index.md
@@ -0,0 +1,7 @@
+# Tutorials
+
+```{toctree}
+:maxdepth: 1
+
+pbmc3k
+```
Original file line number	Diff line number	Diff line change
Expand Up		@@ -207,3 +207,4 @@ marimo/_lsp/
		__marimo__/

		/_build/
		/locat/_version.py