Installation

From PyPI

Install the Python package:

$ pip install Cell-GPS

From conda-forge

Install the official conda-forge package:

$ conda install -c conda-forge cell-gps

From GitHub

Install directly from the public repository:

$ pip install git+https://github.com/hutaobo/cellgps.git

For local inspection

Clone the repository and install it in editable mode:

$ git clone https://github.com/hutaobo/cellgps.git
$ cd cellgps
$ pip install -e .

Requirements

  • Python 3.9 or newer

  • Standard scientific Python stack, including numpy, pandas, matplotlib, seaborn, scanpy, scikit-learn, and pyXenium for Xenium I/O

Optional extras

Install Xenium support:

$ pip install -e .[xenium]

Install Visium support:

$ pip install -e .[visium]