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Installation
Tutorials
Forward simulator
Learned emulator (PyTorch)
Learned emulator (JAX)
Gallery
How-to guides
Train the emulator from meshes
Supervise multiple target frames
Choose a learning backend
Render trajectories
Running forward simulations - Epithelial / Mesenchymal Case Study
Explanation
Cells as spheroidal agents
Forward and inverse modes
Graphs and locality
Emulator differentiability
Shape losses
Architecture
ADR 0001: Runtime and numerical contracts
Reference
Training APIs
waxmorph.train
waxmorph.train.TrainConfig
waxmorph.train.TrainResult
waxmorph.train.train
waxmorph.torch.train
waxmorph.torch.train.TrainConfig
waxmorph.torch.train.TrainResult
waxmorph.torch.train.train
waxmorph.jax.train
waxmorph.jax.train.TrainConfig
waxmorph.jax.train.TrainResult
waxmorph.jax.train.train
External API references
waxmorph
waxmorph.constants
waxmorph.data
waxmorph.data.load_mesh
waxmorph.data.normalize_mesh
waxmorph.data.sample_mesh_pair
waxmorph.data.sample_mesh_sequence
waxmorph.data.sample_volume
waxmorph.emulator
waxmorph.emulator.diffusion_step_differentiable
waxmorph.emulator.mech_step_sticky_differentiable
waxmorph.gnn
waxmorph.graph
waxmorph.jax
waxmorph.jax.gnn
waxmorph.jax.graph
waxmorph.jax.losses
waxmorph.jax.mlp
waxmorph.jax.warp_autograd
waxmorph.losses
waxmorph.mlp
waxmorph.render
waxmorph.render.MPLInterface
waxmorph.render.PyVistaInterface
waxmorph.render.RenderInterface
waxmorph.render.WarpMovieRenderer
waxmorph.simulator
waxmorph.simulator.chem_step
waxmorph.simulator.count_neighbors_step
waxmorph.simulator.gen_key_array
waxmorph.simulator.growth_step
waxmorph.simulator.mech_step_sticky
waxmorph.simulator.mech_step_sticky_implicit
waxmorph.torch
waxmorph.torch.gnn
waxmorph.torch.graph
waxmorph.torch.losses
waxmorph.torch.mlp
waxmorph.torch.warp_autograd
Contributing
Changelog
References
.rst
.pdf
waxmorph.gnn
waxmorph.gnn
#
PyTorch graph-network re-exports for the default
waxmorph.gnn
path.
