v2025.6.17

Making sure everything is in sync before archiving for JOSS
Full Changelog: v2025.5.28...v2025.6.17

v2025.5.28

What's Changed

• Clarify doc by @guillaumelegoc in #28
• image white background by @guillaumelegoc in #35
• Better example by @guillaumelegoc in #36
• Update cells_distributions.py, density_map.py, fibers_coverage.ipynb,… by @guillaumelegoc in #37
• Include data seg by @guillaumelegoc in #38
• Duplicate examples by @guillaumelegoc in #40

Full Changelog: v2025.5.16...v2025.5.28

v2025.5.16

What's Changed

• Contributing by @guillaumelegoc in #15
• Standardize references to Groovy scripts by @guillaumelegoc in #24
• Include segment images by @guillaumelegoc in #25
• Include atlas generation by @guillaumelegoc in #26

Full Changelog: v2025.1.28...v2025.5.16

v2025.1.28

What's Changed

• removed tools module with QuPath script runner
• added tests by @guillaumelegoc in #13
• Pull by @Crackodu91 in #14

Full Changelog: v2025.1.15...v2025.1.28

v2025.1.15

What's Changed

• Pre-processing scripts by @guillaumelegoc in #11
• More explicit support for Brainglobe atlases by @guillaumelegoc in #12

Full Changelog: v2025.1.12...v2025.1.15

v2025.1.12

• For a measurement to be converted from µm to mm, its name needs to end with "µm", instead of just containing "µm"

Full Changelog: v2025.1.10...v2025.1.12

v2025.1.10

• Fixed important problem : output h5 files were appended instead of replaced.

Full Changelog: v2025.1.9...v2025.1.10

v2025.1.9

What's Changed

• Added option to disable leaf-only regions filtering in cuisto.process.process_animal
• Added kwargs passed to process_animal in process_animals
• Huge mistakes by @Crackodu91 in #3

Full Changelog: v2025.01.8...v2025.1.9

v2025.01.8

• It is now possible to leave the "atlas" parameter in the configuration toml files to not use any atlas and use raw QuPath annotations names instead, eg. no filtering based on the atlas is performed (for instance using only leaves regions).

What's Changed

• Update guide-qupath-objects.md by @Crackodu91 in #2

New Contributors

• @Crackodu91 made their first contribution in #2

Full Changelog: v2025.01.7...v2025.01.8

v2025.01.7

Full Changelog: v2024.12.19.1...v2025.01.7