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bioRxiv · 10.1101/2022.03.10.483766

STracking: a free and open-source python library for particle tracking and analysis

Prigent, S.·Valades-Cruz, C. A.·Leconte, L.·Salamero, J.·Kervrann, C.
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Abstract

SummaryAnalysis of intra and extra cellular dynamic like vesicles transport involves particle tracking algorithms. Designing a particle tracking pipeline is a routine but tedious task. Therefore, particle dynamics analysis is often performed by combining several pieces of software (filtering, detection, tracking...) requiring a lot of manual operations, and therefore leading to poorly reproducible results. A good synergy between particle detector with a tracker is of paramount importance. In addition, a user-friendly interface to control the quality of estimated trajectories is necessary. To address these issues, we developed STracking a python library that allows to combine algorithms into standardized particle tracking pipelines. Availability and ImplementationSTracking is available as a python library using "pip install" and the source code is publicly available on GitHub (https://github.com/sylvainprigent/stracking). A graphical interface is available using two napari plugins: napari-stracking and napari-tracks-reader. These napari plugins can be installed via the napari plugins menu or using "pip install". The napari plugin source codes are available on GitHub (https://github.com/sylvainprigent/napari-tracks-reader, https://github.com/sylvainprigent/napari-stracking). Contactsylvain.prigent@inria.fr, cesar-augusto.valades-cruz@curie.fr

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Prigent, S., Valades-Cruz, C. A., Leconte, L., Salamero, J., Kervrann, C.. 2022-03-13. STracking: a free and open-source python library for particle tracking and analysis. https://doi.org/10.1101/2022.03.10.483766

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