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maxschelski/README.md

I am a neurobiology PhD Student and currently developing mathematical models of neuronal cell biology - using mean field modeling of systems of partial differential equations and stochastic simulations.

By training I am an experimental neurobiologist with more than 16 years of experience in programming and 10 years of experience in live-cell imaging of neurons.

For my PostDoc I will develop mathematical models of the cell biology underlying synaptic plasticity.

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  1. figureflow figureflow Public

    Fast, modular and reproducible generation of publication quality scientific figures and movies with only a few lines of code.

    Python 15 1

  2. cytostoch cytostoch Public

    Stochastic simulation (SSA) of cytoskeleton, implemented using CUDA JIT from numba for fast parallel processing on a GPU. Intended for microtubules in neurites, but is much more flexible.

    Python 1

  3. pytorch-cluster-metrics pytorch-cluster-metrics Public

    Pytorch implementation of standard metrics for clustering

    Python 9

  4. neuritemt neuritemt Public

    Package to analyze microtubule orientation in neurons based on output of utrack/plustiptracker.

    Python

  5. pyneurite pyneurite Public

    A computer vision package that traces and analyzes neurites in time-lapse videos fully automated.

    Python