diff --git a/pyproject.toml b/pyproject.toml
index 74cdf5c..e4a211a 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -48,6 +48,10 @@ test = [
 version = {attr = "holoseq.__version__"}
 
 [tool.ruff]
+exclude = [
+    "notebooks",
+    "scripts",
+]
 line-length = 100
 
 [tool.ruff.lint.flake8-tidy-imports]