All software can be downloaded below, or from our GitHub page
All documentation can be found at our GitHub wiki page
NeuroMorph Centerline Processing
Processes center lines generated by the Vascular Modeling Toolkit (VMTK)
, perform calculations in Blender using these center lines. Includes tools to clean meshes, export meshes to VMTK, and import center lines generated by VMTK. Also includes tools to generate cross-sectional surfaces, calculate surface areas of the mesh along the center line, and project vesicle objects onto the center line. Tools are also provided for detecting bouton swellings. Data can be exported for analysis.
NeuroMorph 3D Drawing
Scroll through image stacks in 3D. Place spherical markers (eg vesicles) on images, and draw lines that can be constructed into both open surfaces (eg synapses) and closed surfaces (eg mitochondria) in 3D. Open surfaces with holes are handled. Closed surfaces that branch are not handled.
NeuroMorph Retrieve Object from Image
Objects existing at any image point can be retrieved (made visible), allowing for easy navigation of object connectivity. Requires the 3D Drawing tool to be loaded.
NeuroMorph Proximity Analysis
Calculate the regions of two surfaces that are within a given distance of each other. Provides meshes and outputs surface area data for analysis.
Also includes the Sphere to Surface Distances tool, which computes the closest distance from each vesicle sphere to a synapse mesh. Provides meshes and outputs surface area data for analysis.