TREES: MATLAB toolbox
A new paper in PLoS Computation Biology proposes an elegant formalism for describing neuronal morphology. The reason I’m highlighting it on Labrigger is because the authors have simultaneously released a very extensive, impressive MATLAB toolbox for studying neuronal morphology, including reconstructing neurons from image stacks: the TREES toolbox.
What you’ll find in the TREES toolbox:
o Tools to automatically reconstruct neuronal branching from microscopy image stacks and to generate synthetic axonal and dendritic trees.
o The basic tools to edit, visualize and analyze dendritic and axonal trees.
o Methods for quantitatively comparing branching structures between neurons.
o Tools for exploring how dendritic and axonal branching depends on local optimization of total wiring and conduction distance.
To get an idea of what this toolbox is capable of, look through the extensive manual.
