README.md

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.

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!?)
• add cli tool and exporting via config file
• add background selection and gradient coloring of neurons
• add layered observations export, e.g. like confocal imaging of 3D bodies