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fastPLI

The Fiber Architecture Simulation Toolbox for PLI (fastpli) is a toolbox for polarized light imaging (PLI) with three main purposes:

  • Sandbox - designing of nerve fiber models: The first module allows the user to create different types of nerve fiber bundles and additionally fill them with individual nerve fibers.
    * Details
    * Tutorial


  • Solver - generating collision free models: The second module takes as input a configuration of nerve fibers and checks them for spatial collisions. Since nerve fibers cannot overlap in reality, one must ensure that the models follow the same rules. The solver module implements a simple algorithm that checks for collisions and, if it finds any, pushes the colliding segments of the fibers slightly apart. This is repeated until all collisions are solved.
    * Details
    * Tutorial


  • Simulation - simulation of 3D-Polarized Light Imaging: The simulation module enables the simulation of 3D Polarized Light Imaging (3D-PLI). This is a microscopic technique that allows the polarization change of light moving through a brain section to be measured. Due to the birefringence property of the myelin surrounding the nerve fibers, the polarization state changes. This change enables the calculation of the 3d orientation of the nerve fibers in the brain slice.
    * Details
    * Tutorial

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