PI: Mitra, Partha Pratim (contact); Wang, Yusu
Institution: Cold Spring Harbor Laboratory
Title: Methods from Computational Topology and Geometry for Analysing Neuronal Tree and Graph Data
Software to compute Persistence Vectors from SWC files is available open source at GitHub https://github.com/Nevermore520/NeuronTools. The tools have been deployed on http://neuromorpho.org/ Details can be found in the associated publication, https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0182184
This tool uses topological methods to characterize and classify neuronal shape, i.e. the morphologies of the dendritic and axonal arbors of a given neuron. Previous methods rely on ad-hoc, handcrafted feature vectors to characterize this tree shape. We use the Persistent Homology of descriptor functions defined on the neurons, to provide a principled method that respects the intrinsic characteristics of neuronal shape without having to hand-craft feature vectors.
Grant #: EB022899
2021 Brain PI Meeting
Link to Poster: