neuron-reconstruction

The framework for quantification of neuronal anatomy

Automated Neuron Reconstruction from 3D Fluorescence Microscopy Images Using Sequential Monte Carlo Estimation

Python wrapper for SNT, the framework for quantification of neuronal anatomy

Deep-Learning Based Automated Neuron Reconstruction from 3D Microscopy Images Using Synthetic Training Images

PhD dissertation: Methods for Automated Neuron Image Analysis candidate: Miroslav Radojevic Publisher: Erasmus University ISBN 978-94-6361-204-3

Code Ocean pipeline: exaSPIM neuron reconstructions to CCF space, one AIND derived asset per neuron

Processing and packaging of exaSPIM neuron SWC reconstructions into per-cell AIND derived data assets.

Code Ocean capsule: packages exaSPIM SWC pipeline outputs into per-cell AIND derived data assets.

Code Ocean capsule: resamples exaSPIM reconstructions and annotates CCF-space outputs.

Code Ocean capsule: transforms exaSPIM SWC reconstructions into CCF space.