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Particle Tracker (2D) Extended

Particle Tracking and Using Results in ImageJ

Author

Kota Miura
Centre for Molecular and Cellualr Imaging (CMCI), EMBL Heidelberg
miura at embl dot de Tel: +49 6221 387 404

History

10-11-19 First release

Source

Installation

Download ParticleTracker_.jar and place it in the ImageJ plugin folder.

Requires

ImageJ ver 1.44h or higher (ImageJ, upgrade page).

Description

ParticleTracker plugin written by Guy Levy (Computational Biophysics Lab, ETH Zurich) added with interactive export of segmentation and tracking results to ImageJ results table. Original web site is HERE

I. F. Sbalzarini and P. Koumoutsakos.
Feature point tracking and trajectory analysis for video imaging in cell biology.
J. Struct. Biol., 151(2): 182-195, 2005.
PubMed

Work Flow

Fig. 1 ParticleTracker Results window
Fig. 2 Focus on trajectory, selected by clicking and surrounded by a ROI
Fig. 3 Results table with trajectory data from Particle Tracker plugin
Fig. 4 Results table with selected trajectory data from particle tracking
  • 1. Segmentation and Tracking
  • 2. Transferring all trajectory data
    • In the ParticleTracking Results window (see Fig.1), click “All Trajectory to Table” button. All trajectory data will be then transferred to the results table of ImageJ, which then could be directly accessed using ImageJ macro and other scripting languages (Fig. 3).
  • 3. Transferring all segmented particle data
    • Similarly, all particles segmented in the initial particle detection module could be transferred to the Results window by clicking “All Segmented to Table”
  • 4. Transferring Specific Trajectory data
    • You could export only a specific trajectory. First, visualize trajectories by clicking “Visualize all trajectories”. In the window overlaid with color-coded trajectories, choose one manually by clicking the trajectory of interest (Fig. 2). ROI will then appear surrounding that trajectory. Then click “Selected Trajectory to Table”. Coordinates of that trajectory will be transferred to ImageJ results table (Fig. 4).
downloads/particletracker2d.1298808862.txt.gz · Last modified: 2016/05/24 12:46 (external edit)

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