Installation

Recommended

We recommend to install the library from Pypy

$ pip install byotrack

From source

You can also install the latest commit from source

$ git clone https://github.com/raphaelreme/byotrack
$ cd byotrack
$ python setup.py install

Development

$ pip install -r requirements-dev.txt
# If you need to build the documentation locally
$ pip install -r docs/requirements.txt

Additional requirements

Some tracker implementations require additional dependencies that are not installed with the library, to use them you need to install their dependencies on your own. Here is the complete list:

• StarDistDetector

  • stardist (+ tensorflow): Install stardist

• IcyEMHTLinker

  • Icy: Download Icy

  • Spot Tracking Blocks plugin: Install an Icy plugin

• TrackMateLinker

  • Fiji: Download Fiji

  • tifffile: Install tifffile

• SkimageOpticalFlow

  • scikit-image: Install stardist <https://scikit-image.org/docs/stable/user_guide/install.html>`_

For visualization with byotrack.visualize module, you need to install matplotlib (pip install matplotlib).