WormMovementSimulation - 3D Simulation of Worm Body Movement with Neurons attached to its body

Overview

Generate 3D Locomotion Data

This module is intended to create 2D video trajectories of 3D neuron structures, e.g. microscopy images of neuron activations inside a transparent body.

samples/sample_animation.gif

TODO

  • add base classes
  • add animation samples
  • add exporting as .npz files, e.g. projected 2d image time series and individual neuron traces
  • more realistic exporting, e.g. add noises/blurring to glow, observation and video quality
  • add segment rotation smoothing, e.g. interpolate rotation angles between neighboring segments
  • add realistic dynamics samples, e.g. accelerations that mimic real movements, glow spiking dynamics
  • use real life structural examples, e.g. code to generate real worm neuron positions and mimic worm movements
  • restructure base classes -> move positions/connections to segments rather than bones (or not!?)
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