brainglobe-atlasapi

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[BUG] Spinal cord mesh rotated at 90 degrees in meshio/napari

3

**Describe the bug** The `allen_cord_20um` mesh behaves differently to the other meshes. I don't think it's because it's anisotropic. Could also be a `meshio` (or a `napari`) bug (but it...

alessandrofelder

**Describe the bug** both `mpin_zfish_1um` atlas additional references are the same as reference **To Reproduce** Subtract any of the images from each other and check the histogram of the result...

alessandrofelder

**Describe the bug** kim_mouse_100um mesh and annotations are not in same coordinate system? **To Reproduce** Display the root mesh and the annotations image in `brainrender-napari` **Expected behaviour** Root mesh and...

alessandrofelder

[Feature] Remember code and dependency versions when generating atlas.

2

**Is your feature request related to a problem? Please describe.** If we discover a bug in an atlas years later, it may be hard to reproduce it, because the codebase...

alessandrofelder

**Is your feature request related to a problem? Please describe.** Currently linting fails with ```bash bg_atlasgen/atlas_scripts/admba_3d_dev_mouse.py:221:8: E721 Do not compare types, use `isinstance()` bg_atlasgen/metadata_utils.py:51:12: E721 Do not compare types, use...

alessandrofelder

- [ ] brainglobe/brainglobe-atlasapi#217 - [ ] brainglobe/brainglobe-atlasapi#216 - [ ] Add a git commit hash metadata entry (also dependency version) brainglobe/brainglobe-atlasapi#228 - [ ] brainglobe/brainglobe-atlasapi#218 - [ ] brainglobe/brainglobe-atlasapi#219...

adamltyson

adamltyson

adamltyson

adamltyson

Refactor scripts to simplify code base as much as possible

2

adamltyson