copick convert
Convert one copick type to another.
Usage
Description
Commands in this group convert between copick entity types, for example turning picks into meshes or segmentations into picks. Subcommands are contributed by installed plugins.
Commands
| Command | Description |
|---|---|
mesh2caps |
Extract the top/bottom surfaces (caps) of a slab box mesh. |
mesh2picks |
Convert meshes to picks using different sampling strategies. |
mesh2seg |
Convert meshes to segmentation volumes. |
nnunet |
Convert a copick project to nnUNet raw dataset format. |
picks2ellipsoid |
Convert picks to ellipsoid meshes. |
picks2mesh |
Convert picks to meshes using convex hull or alpha shapes. |
picks2plane |
Convert picks to plane meshes. |
picks2seg |
Convert picks to segmentation volumes by painting spheres. |
picks2slab |
Fit spline surfaces to two pick sets and create a slab mesh. |
picks2sphere |
Convert picks to sphere meshes. |
picks2surface |
Convert picks to 2D surface meshes. |
seg2mesh |
Convert segmentation volumes to meshes using marching cubes. |
seg2picks |
Convert segmentation to picks. |
seg2slab |
Fit parallel planes to a segmentation and create a slab mesh. |