btrack

btrack is a multi object tracking algorithm, specifically used to reconstruct trajectories in crowded fields. New observations are assigned to tracks by evaluating the posterior probability of each potential linkage from a Bayesian belief matrix for all possible linkages.

We developed btrack for cell tracking in time-lapse microscopy data.

Installation¶

To install the napari plugin associated with btrack run the command.

pip install btrack[napari]

Example data¶

You can try out the btrack plugin using sample data:

python btrack/napari/examples/show_btrack_widget.py

which will launch napari and the btrack widget, along with some sample data.

Setting parameters¶

There are detailed tips and instructions on parameter settings over at the documentation.

Associated plugins¶

• napari-arboretum - Napari plugin to enable track graph and lineage tree visualization.