Napari plugin for cell tracking with trackastra.
Project description
napari-trackastra
A napari plugin for cell tracking with trackastra
.
Installation
First install napari (and PyQt), e.g.
conda install -y -c conda-forge pyqt
pip install napari
Then install the latest version from PyPI with:
pip install napari-trackastra
For tracking with an integer linear program (ILP, which is optional), follow the installation instructions of the main trackastra
package.
Notes:
- On Windows currently only supported for Python 3.10.
Usage
trackastra
expects a timeseries of raw images and corresponding segmentations masks as input.- We provide some demo data at
File > Open Sample > trackastra
. - Tracked cells can be directly saved to Cell Tracking Challenge format.
- Results can be drag-and-dropped back into napari for inspection.
Project details
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