Semi-automatic Geometrical Reconstruction and Analysis of Filopodia Dynamics in 4D Two-Photon Microscopy Images

Here one can find supplementary source code for the publication.

Additionally two example datasets of Drosophila Melanogaster R7 photoreceptos are provided, along with extensive user manual for the tool.

The tool was developed at the Zuse Institute Berlin (ZIB) and is provided under an MIT-style license, as detailed in the LICENSE.txt file.

This source code implements an extension package to the commercial visualization software Amira. The package can be compiled against commercial Amira 2022.2 using the XPand extension.

If using our approach, please cite our article:

Brence, B., Brummer, J., Dercksen, V.J. et al. Semi-automatic geometrical reconstruction and analysis of filopodia dynamics in 4D two-photon microscopy images. BMC Bioinformatics 27, 48 (2026). https://doi.org/10.1186/s12859-026-06385-4

@article {brence2026,
	author = {Brence, Bla{\v z} and Brummer, Josephine and Dercksen, Vincent J. and {\"O}zel, Mehmet Neset and Kulkarni, Abhishkek and Wolterhoff, Neele and Prohaska, Steffen and Hiesinger, Peter Robin and Baum, Daniel},
	title     = {Semi-automatic geometrical reconstruction and analysis of filopodia dynamics in 4D two-photon microscopy images},
	journal   = {BMC Bioinformatics},
	year      = {2026},
	volume    = {27},
	pages     = {48},
	doi       = {10.1186/s12859-026-06385-4},
	url       = {https://doi.org/10.1186/s12859-026-06385-4},
	publisher = {Springer}
}