Capturing mitoflashes
1.0

Workflow Type: Galaxy

This workflow is developed for automatic detection and measuring of mitoflashes in time-lapse microscopy images.

In addition, this workflow can be used for detection and tracking of other spot-like organelles with small motion.

If this workflow helped with the analysis of your data, please do not forget to cite: https://doi.org/10.1097/j.pain.0000000000002642

Associated Tutorial

This workflows is part of the tutorial Tracking of mitochondria and capturing mitoflashes, available in the GTN

Workflow Author(s): BMCV Group, Heidelberg University

Tutorial Author(s): Diana Chiang Jurado, Leonid Kostrykin

SEEK ID: https://dev.workflowhub.eu/workflows/1374?version=1

ID	Name	Description
0	Mitochondrion detection	Localization and intensity measurement of mitochondria in all frames. (*Note: 1. The input image sequence should be a single TIFF stack; 2. parameter 'Sigma' needs to be adapted for the input image.) toolshed.g2.bx.psu.edu/repos/imgteam/spot_detection_2d/ip_spot_detection_2d/0.0.1
1	Mitochondrion tracking	Association of all detected mitochondria. (*Note: Parameter 'Neighborhood size' needs to be adapted for the size and moving speed of mitochondria in images.) toolshed.g2.bx.psu.edu/repos/imgteam/points_association_nn/ip_points_association_nn/0.0.3-2
2	Curve fitting to measured intensities	For each mitochondrion, a curve is fitted to its intensities over time. If the significance level is set to a value greater than zero, an additional curve is generated to assist in distinguishing mitoflash events (significant intensity deviation from the fitted curve). toolshed.g2.bx.psu.edu/repos/imgteam/curve_fitting/ip_curve_fitting/0.0.3-2

ID	Name	Description	Type
Curve Fitting for Mitoflash Detection	#main/Curve Fitting for Mitoflash Detection	n/a	File
Spot Detection Across Frames	#main/Spot Detection Across Frames	n/a	File
Spot Detection of Mitoflashes	#main/Spot Detection of Mitoflashes	n/a	File

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Created: 25th Nov 2024 at 13:09

Last updated: 25th Nov 2024 at 13:09