download the TREES toolbox (v1.15) for Matlab:

[download zipped TREES 1.15]

download the TREES toolbox (interim version) for more recent Matlab version:

[download zipped TREES interim]
Note: TREES 2.0 is coming soon; this is an interim version that is not entirely backward compatible, contains some bugs and does not yet contain the new features of TREES 2.0. However, recent Matlab versions are incompatible with version 1.15 and require the changes made in this package.Please contact to receive support on issues with the interim version of TREES toolbox.

developer's site check out our Google Code project which gives you access to the SVN repository, a developers and user forum, and a mailing list at:
Note: we will soon switch to github.

our new extended swc format (.nmf), Torben-Nielsen et al (SfN 2016 poster)
load_tree nmf_tree.

optional Python wrapper written by Eilif Müller. Check out his project site.

requirements Tested most thoroughly on Matlab version (Matlab 2010a) under Windows, Mac and Linux. Some functions for the reconstruction of neuronal trees from image stacks require the "image processing toolbox" of Matlab.
For semi-automated reconstruction we recommend following minimal hardware:
-    a lot of RAM, e.g. 8 Gbytes
-    64 bit
-    a mouse wheel
The TREES toolbox was developed on a DELL precision T5400 with 8 cores (2 x Xeon X5450 3 Ghz 4 cores), 8 Gbytes of RAM and a NVIDIA Quadro FX 4600 graphic card, running 64-bit Microsoft Windows 7.

getting started Simply download, unzip it in your favourite directory and open Matlab. Enter the TREES directory and type in:

>> start_trees

for more details have a look at the manual.

contact please send emails concerning questions, bug-fixes and extensions including example code only to the following addresses: and

license the TREES toolbox is published under the GNU General Public License Version 3 (GPLv3)

disclaimer Please note that this is a beta version and that we are aware that many bugs will be uncovered after making the TREES toolbox public. Unfortunately we do not possess the capacities to respond to all requests and questions sent to us. Please note also that subsequent releases will not be backward compatible.

Creative Commons License
This work is licensed under a Creative Commons Attribution-Noncommercial-Share Alike 3.0 License
last updated on 20 January 2017, Hermann Cuntz