Package index

Deformetrica 4 client

Fit and apply diffeomorphisms with a modern Deformetrica (>= 4.3) install.

install_deformetrica()

Install Deformetrica into a managed Python environment

find_deformetrica()

Locate the Deformetrica (>= 4.3) command-line executable

deformetrica_register()

Fit a Deformetrica diffeomorphism between two point sets (registration)

deformetrica_register_multi()

Fit ONE diffeomorphism to many matched objects (multi-object registration)

deformetrica_shoot()

Apply a fitted Deformetrica diffeomorphism to 3D points (geodesic shooting)

xformpoints(<deformetricareg>)

Apply a Deformetrica registration as a natverse transform

Alignment helpers

Prepare and post-process objects for a cross-brain registration.

affine_prealign()

Affine pre-alignment of one object onto another

split_mesh_lr()

Split a surface mesh into left and right halves by a midline plane

mirror_lr_split()

Assign left/right to an (even unpaired, midline) object by self-mirror warping

Visualisation

Animate a geodesic flow with nat.ggplot.

ggplot_flow_gif()

Animate a Deformetrica geodesic flow as a nat.ggplot GIF

Object I/O

Read and write neurons, meshes and point sets as VTK.

write_neuron_vtk()

Write a neuron as a VTK NonOrientedPolyLine

read_vtk()

Read a VTK format file

write_vtk()

Write VTK file

transform_vtk()

Transform a .vtk object