Trace, quantify, and model multi-signal neuron morphology

The zipped folder contains eight separate folders: i) Finalized Imagestacks, ii) Repair, iii) Scaling, iv) Quantify, v) Simulate, vi) TREES1.15, and vii) Vaa3D_MultiChannel_Compiled_Library, viii) StepByStepFiles Details: i) Finalized_Imagestacks: Finalized imagestacks for three neuron types that are used to trace the neurons and produce the multi-signal swc files. ii) Repair: Topological repair folder. Copy the initially traced files here and then repair them. iii) Scaling: Scaling folder. Copy the outputs from the Multi-channel plugin folder, scale the multisignal files (from voxel to physical dimension) to finalize them. iv) Quantify: Quantification of Cytoskeletal morphometrics folder. Several subfolders contain different parts of the Quantification process. v) Simulate: Simulation of virtual neuron arbor: subfolders for each three neurontype simulation and analysis. vi) TREES1.15: TREES Toolbox package with a few custom updates. vii) Vaa3D_MultiChannel_Compiled_Library: Compiled Multi-channel swc libraries for Vaa3d 3.1 (for both windows and mac) vii) StepByStepFiles: Intermediate and finalized image stack and Reconstruction of an example Class IV Wild Type neuron.