Installation

Heteromotility depends on >=python3.6. The tool will operate using >=python2.7, but this is not supported. We recommend the Anaconda Python distribution.

Heteromotility can be installed from the Python Package Index with pip

pip install heteromotility

or

Simply clone this repository and run setup.py in the standard manner.

git clone https://github.com/cellgeometry/heteromotility
cd heteromotility
python setup.py install
heteromotility -h
usage: Calculate motility features from cell locations or cell paths
[-h] [--seg SEG] [--exttrack EXTTRACK] input_dir output_dir

Both methods of package installation will add an alias heteromotility to your PATH environment variable.

As with all research software, we recommend installing Heteromotility inside of a virtual environment.

virtualenv heteromotility_env/
source heteromotility_env/bin/activate
pip install heteromotility