SpineJ is a semi-automatic ImageJ plugin that is specifically designed for quantifying nanoscale structures like dendritic spines. SpineJ comes with an intuitive and user-friendly graphical user interface, facilitating fast, accurate, and unbiased analysis of spine morphology.
A jar file of the plugin can be downloaded here. The repository contains also a manual and a STED image used in the paper.
Source code is still being cleaned up and should follow shortly (hopefully...).
If you use SpineJ for any capacity in your work, please cite the original SpineJ paper:
SpineJ: A software tool for quantitative analysis of nanoscale spine morphology.
Florian Levet, Jan Tønnesen, U. Valentin Nägerl, Jean-Baptiste Sibarita.
Methods 2020.
10.1016/j.ymeth.2020.01.020