diff --git a/.github/workflows/test_and_deploy.yml b/.github/workflows/test_and_deploy.yml
index e9af851c..12e74d3d 100644
--- a/.github/workflows/test_and_deploy.yml
+++ b/.github/workflows/test_and_deploy.yml
@@ -44,15 +44,15 @@ jobs:
       matrix:
         # Run all supported Python versions on linux
         os: [ubuntu-latest]
-        python-version: ["3.9", "3.10", "3.11"]
+        python-version: ["3.10", "3.11", "3.12"]
         # Include one windows and two macOS (intel based and arm based) runs
         include:
           - os: macos-13
-            python-version: "3.11"
+            python-version: "3.12"
           - os: macos-latest
-            python-version: "3.11"
+            python-version: "3.12"
           - os: windows-latest
-            python-version: "3.11"
+            python-version: "3.12"
 
     steps:
       - name: Cache brainglobe directory
@@ -98,7 +98,7 @@ jobs:
       # Run test suite with numba disabled
       - uses: neuroinformatics-unit/actions/test@v2
         with:
-          python-version: "3.11"
+          python-version: "3.12"
           secret-codecov-token: ${{ secrets.CODECOV_TOKEN }}
           codecov-flags: "numba"
 
@@ -125,10 +125,10 @@ jobs:
         with:
           repository: 'brainglobe/brainglobe-workflows'
 
-      - name: Set up Python 3.11
+      - name: Set up Python 3.12
         uses: actions/setup-python@v3
         with:
-          python-version: "3.11"
+          python-version: "3.12"
 
       - name: Install test dependencies
         run: |
diff --git a/.github/workflows/test_include_guard.yaml b/.github/workflows/test_include_guard.yaml
index a1bb8e79..b84f0e20 100644
--- a/.github/workflows/test_include_guard.yaml
+++ b/.github/workflows/test_include_guard.yaml
@@ -22,7 +22,7 @@ jobs:
       - name: Setup Python
         uses: actions/setup-python@v4
         with:
-          python-version: '3.11'
+          python-version: '3.12'
 
       - name: Install cellfinder via pip
         run: python -m pip install -e "."
diff --git a/pyproject.toml b/pyproject.toml
index 6f03d98d..5ff9e92c 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -14,12 +14,12 @@ classifiers = [
     "Operating System :: OS Independent",
     "Programming Language :: Python",
     "Programming Language :: Python :: 3",
-    "Programming Language :: Python :: 3.9",
     "Programming Language :: Python :: 3.10",
     "Programming Language :: Python :: 3.11",
+    "Programming Language :: Python :: 3.12",
     "Topic :: Scientific/Engineering :: Image Recognition",
 ]
-requires-python = ">=3.9"
+requires-python = ">=3.10"
 dependencies = [
     "brainglobe-utils>=0.5.0",
     "brainglobe-napari-io>=0.3.4",
@@ -79,7 +79,7 @@ requires = ["setuptools>=45", "wheel", "setuptools_scm[toml]>=6.2"]
 build-backend = 'setuptools.build_meta'
 
 [tool.black]
-target-version = ['py39', 'py310','py311']
+target-version = ['py310','py311', 'py312']
 skip-string-normalization = false
 line-length = 79
 
@@ -111,14 +111,14 @@ markers = ["slow: marks tests as slow (deselect with '-m \"not slow\"')"]
 legacy_tox_ini = """
 # For more information about tox, see https://tox.readthedocs.io/en/latest/
 [tox]
-envlist = py{39,310,311}
+envlist = py{310,311,312}
 isolated_build = true
 
 [gh-actions]
 python =
-    3.9: py39
     3.10: py310
     3.11: py311
+    3.12: py312
 
 [testenv]
 commands = python -m pytest -v --color=yes --cov=cellfinder --cov-report=xml