Update python versions 3.8-3.14

.github/workflows/build.yml

@@ -0,0 +1,41 @@
+name: Build and Test
+
+on:
+  push:
+
+permissions:
+  contents: read # to fetch code (actions/checkout)
+
+jobs:
+  build_wheels:
+    name: ${{ matrix.os }} Wheels
+    runs-on: ${{ matrix.os }}
+    strategy:
+      # Ensure that a wheel builder finishes even if another fails
+      fail-fast: false
+      matrix:
+        os: [windows-latest, macos-latest]
+        python-version: ['3.8', '3.9', '3.10', '3.11', '3.12']
+
+    steps:
+      - name: Checkout ${{ github.repository }}
+        uses: actions/checkout@v3
+        with:
+          fetch-depth: 0
+
+      - name: Set up Python ${{ matrix.python-version }}
+        uses: actions/setup-python@v2
+        with:
+          python-version: ${{ matrix.python-version }}
+
+      - name: Dependencies
+        run:  pip install . 
+
+      - name: Test
+        run: |
+            python -c "\
+            import anndata
+            from sketchKH import *
+            adata = anndata.read_h5ad('data/nk_cell_preprocessed.h5ad')
+            kh_indices, adata_subsample = sketch(adata, sample_set_key = 'FCS_File', gamma = 1, num_subsamples = 500, frequency_seed = 0, n_jobs = 4)
+            "

README.md

@@ -4,13 +4,13 @@ Distribution-Informed Sketching with Kernel Herding
 ## Overview
 We provide a set of functions for distribution-aware sketching of multiple profiled single-cell samples via Kernel Herding. Our sketches select a small, representative set of cells from each profiled sample so that all major immune cell-types and their relative frequencies are well-represented. 
 * Please see our paper for more information (ACM-BCB 2022) : https://arxiv.org/abs/2207.00584
-* Updated : December 27, 2024
+* Updated : March 17, 2026
 
 ![Sketching via KH Overview](https://github.com/CompCy-lab/SketchKH/blob/main/sketch_overview.png?raw=True)
 
 ## Installation
 Dependencies
-* Python >= 3.6 < 3.10, anndata >= 0.7.6, numpy >= 1.22.4, scipy >= 1.7.1, numba, joblib, tqdm_joblib
+* Python >= 3.6, anndata >= 0.7.6, numpy >= 1.22.4, scipy >= 1.7.1, numba, joblib, tqdm_joblib
 
 You can install the package with `pip` by,
 ```

pyproject.toml

@@ -0,0 +1,48 @@
+[build-system]
+requires = ["setuptools>=61.0", "wheel"]
+build-backend = "setuptools.build_meta"
+
+[project]
+name = "sketchKH"
+version = "0.1.3"
+description = "Distribution-based sketching of single-cell samples"
+readme = "README.md"
+requires-python = ">=3.6"
+authors = [
+    { name = "CompCy Lab", email = "compcylab@gmail.com" }
+]
+dependencies = [
+    "anndata>=0.7.6",
+    "numpy>=1.22.4",
+    "scipy>=1.7.1",
+    "numba",
+    "tqdm",
+    "joblib",
+    "tqdm_joblib",
+]
+keywords = [
+    "cytometry",
+    "single-cell bioinformatics",
+    "clinical prediction",
+    "compression",
+    "computational biology",
+]
+classifiers = [
+    "Development Status :: 3 - Alpha",
+    "Intended Audience :: Science/Research",
+    "Topic :: Scientific/Engineering :: Bio-Informatics",
+    "License :: OSI Approved :: MIT License",
+    "Programming Language :: Python :: 3.8",
+    "Programming Language :: Python :: 3.9",
+    "Programming Language :: Python :: 3.10",
+    "Programming Language :: Python :: 3.11",
+    "Programming Language :: Python :: 3.12",
+    "Operating System :: OS Independent",
+]
+
+[project.urls]
+Homepage = "https://github.com/CompCy-lab/SketchKH"
+
+[tool.setuptools.packages.find]
+include = ["sketchKH*"]
+exclude = ["data*"]