Quantitative Morphogenesis Laboratory

University of Toronto


PyJAMAS plugins

Change polyline ID - Ray Hawkins - interactive modification of the ID of a polyline.

Export text annotations - Rodrigo Fernandez-Gonzalez - exports PyJAMAS annotations to a text file.

Recoil velocity - Rodrigo Fernandez-Gonzalez - analyze laser ablation experiments (includes recoil velocity analysis and Kelvin-Voigt modelling)

Time difference - Rodrigo Fernandez-Gonzalez - calculates the difference in pixel values across slices (i.e. a gradient along the third dimension of an image stack).

Tricellular Junction Automated Detection #1 - Ray Hawkins - initial placement of fiducials identifying tricellular junctions

Tricellular Junction Automated Detection #2 - Ray Hawkins - interactive editing of tricellular junction identification throughout a time series

Wire connect - Rodrigo Fernandez-Gonzalez - connects two points using Dijkstra's minimal cost path algorithm. Can be applied iteratively over multiple image slices.