diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index af3eb03..7d5b182 100644
--- a/.pre-commit-config.yaml
+++ b/.pre-commit-config.yaml
@@ -33,7 +33,7 @@ repos:
 
 - repo: https://github.com/astral-sh/ruff-pre-commit
   # Ruff version.
-  rev: v0.16.2
+  rev: v0.16.9
   hooks:
     # Run the linter.
     - id: ruff-check
@@ -55,7 +55,7 @@ repos:
 #   - id: codespell
 
 - repo: https://github.com/PyCQA/bandit
-  rev: 1.7.9
+  rev: 1.9.4
   hooks:
     - id: bandit
       args: ["-c", "pyproject.toml"]
diff --git a/README.md b/README.md
index 41a3463..34c4ec0 100644
--- a/README.md
+++ b/README.md
@@ -52,8 +52,11 @@ sce = singlecellexperiment.read_h5ad("tests/data/adata.h5ad")
 from singlecellexperiment import SingleCellExperiment
 
 tse = SingleCellExperiment(
-    assays={"counts": counts}, row_data=df_gr, col_data=col_data,
-    reduced_dims={"tsne": ..., "umap": ...}, alternative_experiments={"atac": ...}
+    assays={"counts": counts},
+    row_data=df_gr,
+    col_data=col_data,
+    reduced_dims={"tsne": ..., "umap": ...},
+    alternative_experiments={"atac": ...},
 )
 ```