What's Changed * Fix neighbors calculation by WeilerP in https://github.com/theislab/scvelo/pull/1233 * Make progress bar optional by WeilerP in https://github.com/theislab/scvelo/pull/1234 * Fix/get df with default args by Oisin-M in https://github.com/theislab/scvelo/pull/1231 * Update `utils.py` by WeilerP in https://github.com/theislab/scvelo/pull/1252 * Fix iteration over Pandas Series by WeilerP in https://github.com/theislab/scvelo/pull/1262 * Update densifying sparse array by WeilerP in https://github.com/theislab/scvelo/pull/1263 * Remove numpy<2.0.0 pin by WeilerP in https://github.com/theislab/scvelo/pull/1267 * Remove velovi by WeilerP in https://github.com/theislab/scvelo/pull/1274 * Remove redundant Scanpy functions by WeilerP in https://github.com/theislab/scvelo/pull/1276 * Update CR2 reference by WeilerP in https://github.com/theislab/scvelo/pull/1277 * Update docs by WeilerP in https://github.com/theislab/scvelo/pull/1279 * Update logging by WeilerP in https://github.com/theislab/scvelo/pull/1281
What's Changed * Remove hard `scvi-tools` dependency by michalk8 in https://github.com/theislab/scvelo/pull/1185 * Unpin scikit-learn by Zethson in https://github.com/theislab/scvelo/pull/1194 * Update `scatter` and `update_axes` by WeilerP in https://github.com/theislab/scvelo/pull/1205 * Update `plotting/utils.py::hist` by WeilerP in https://github.com/theislab/scvelo/pull/1217 * Update `VELOVI::train` by WeilerP in https://github.com/theislab/scvelo/pull/1219 * Update `release.yml` by WeilerP in https://github.com/theislab/scvelo/pull/1221 * Remove `debug.py` by WeilerP in https://github.com/theislab/scvelo/pull/1222 * Update `pyptoject.toml` by WeilerP in https://github.com/theislab/scvelo/pull/1224 * Update `pyproject.toml` by WeilerP in https://github.com/theislab/scvelo/pull/1226
New Contributors * Zethson made their first contribution in https://github.com/theislab/scvelo/pull/1194
* Add VELOVI * Add method to infer transcription rates based on metabolic labeling data * Fix bugs s.t. code runs with latest versions of `numpy`, `pandas`, `matplotlib`