cuisto - v2025.6.17

Making sure everything is in sync before archiving for JOSS Full Changelog: https://github.com/TeamNCMC/cuisto/compare/v2025.5.28...v2025.6.17

Scientific Software - Peer-reviewed - Python
Published by GuillaumeLeGoc 8 months ago

cuisto - v2025.5.28

What's Changed

• Clarify doc by @GuillaumeLeGoc in https://github.com/TeamNCMC/cuisto/pull/28
• image white background by @GuillaumeLeGoc in https://github.com/TeamNCMC/cuisto/pull/35
• Better example by @GuillaumeLeGoc in https://github.com/TeamNCMC/cuisto/pull/36
• Update cellsdistributions.py, densitymap.py, fibers_coverage.ipynb,… by @GuillaumeLeGoc in https://github.com/TeamNCMC/cuisto/pull/37
• Include data seg by @GuillaumeLeGoc in https://github.com/TeamNCMC/cuisto/pull/38
• Duplicate examples by @GuillaumeLeGoc in https://github.com/TeamNCMC/cuisto/pull/40

Full Changelog: https://github.com/TeamNCMC/cuisto/compare/v2025.5.16...v2025.5.28

Scientific Software - Peer-reviewed - Python
Published by GuillaumeLeGoc 9 months ago

cuisto - v2025.5.16

What's Changed

• Contributing by @GuillaumeLeGoc in https://github.com/TeamNCMC/cuisto/pull/15
• Standardize references to Groovy scripts by @GuillaumeLeGoc in https://github.com/TeamNCMC/cuisto/pull/24
• Include segment images by @GuillaumeLeGoc in https://github.com/TeamNCMC/cuisto/pull/25
• Include atlas generation by @GuillaumeLeGoc in https://github.com/TeamNCMC/cuisto/pull/26

Full Changelog: https://github.com/TeamNCMC/cuisto/compare/v2025.1.28...v2025.5.16

Scientific Software - Peer-reviewed - Python
Published by GuillaumeLeGoc 9 months ago

cuisto - v2025.1.28

What's Changed

• removed tools module with QuPath script runner
• added tests by @GuillaumeLeGoc in https://github.com/TeamNCMC/cuisto/pull/13
• Pull by @Crackodu91 in https://github.com/TeamNCMC/cuisto/pull/14

Full Changelog: https://github.com/TeamNCMC/cuisto/compare/v2025.1.15...v2025.1.28

Scientific Software - Peer-reviewed - Python
Published by GuillaumeLeGoc about 1 year ago

cuisto - v2025.1.15

What's Changed

• Pre-processing scripts by @GuillaumeLeGoc in https://github.com/TeamNCMC/cuisto/pull/11
• More explicit support for Brainglobe atlases by @GuillaumeLeGoc in https://github.com/TeamNCMC/cuisto/pull/12

Full Changelog: https://github.com/TeamNCMC/cuisto/compare/v2025.1.12...v2025.1.15

Scientific Software - Peer-reviewed - Python
Published by GuillaumeLeGoc about 1 year ago

cuisto - 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: https://github.com/TeamNCMC/cuisto/compare/v2025.1.10...v2025.1.12

Scientific Software - Peer-reviewed - Python
Published by GuillaumeLeGoc about 1 year ago

cuisto - v2025.1.10

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

Full Changelog: https://github.com/TeamNCMC/cuisto/compare/v2025.1.9...v2025.1.10

Scientific Software - Peer-reviewed - Python
Published by GuillaumeLeGoc about 1 year ago

cuisto - 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 https://github.com/TeamNCMC/cuisto/pull/3

Full Changelog: https://github.com/TeamNCMC/cuisto/compare/v2025.01.8...v2025.1.9

Scientific Software - Peer-reviewed - Python
Published by GuillaumeLeGoc about 1 year ago

cuisto - 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 https://github.com/TeamNCMC/cuisto/pull/2

New Contributors

• @Crackodu91 made their first contribution in https://github.com/TeamNCMC/cuisto/pull/2

Full Changelog: https://github.com/TeamNCMC/cuisto/compare/v2025.01.7...v2025.01.8

Scientific Software - Peer-reviewed - Python
Published by GuillaumeLeGoc about 1 year ago

cuisto - v2025.01.7

Full Changelog: https://github.com/TeamNCMC/cuisto/compare/v2024.12.19.1...v2025.01.7

Scientific Software - Peer-reviewed - Python
Published by GuillaumeLeGoc about 1 year ago

cuisto - v2024.12.19.1

Fixed Github Actions for auto-publish on PyPI upon release.

Full Changelog: https://github.com/TeamNCMC/cuisto/compare/v2024.12.19...v2024.12.19.1

Scientific Software - Peer-reviewed - Python
Published by GuillaumeLeGoc about 1 year ago

cuisto - v2024.12.19

What's Changed

• Rename package to cuisto by @GuillaumeLeGoc in https://github.com/TeamNCMC/cuisto/pull/1

New Contributors

• @GuillaumeLeGoc made their first contribution in https://github.com/TeamNCMC/cuisto/pull/1

Full Changelog: https://github.com/TeamNCMC/cuisto/compare/v2024.12.10...v2024.12.19

Scientific Software - Peer-reviewed - Python
Published by GuillaumeLeGoc about 1 year ago

cuisto - v2024.12.10

Full Changelog: https://github.com/TeamNCMC/histoquant/compare/v2024.11.27.1...v2024.12.10

Scientific Software - Peer-reviewed - Python
Published by GuillaumeLeGoc about 1 year ago

cuisto - v2024.11.27.1

Full Changelog: https://github.com/TeamNCMC/histoquant/compare/v2024.11.27...v2024.11.27.1

⚠️ Hotfix for segmentation script, previous analyses with multiple channels should be discarded ⚠️ The filters dict was modified in the main function to convert filters to pixels. With multiple channels, it was converted again at each iteration. Now a copy of this dict is passed to the function to avoid this behavior.

Scientific Software - Peer-reviewed - Python
Published by GuillaumeLeGoc about 1 year ago

cuisto - v2024.11.27

Full Changelog: https://github.com/TeamNCMC/histoquant/compare/v2024.11.19...v2024.11.27

Scientific Software - Peer-reviewed - Python
Published by GuillaumeLeGoc about 1 year ago

cuisto - v2024.11.19

v2024.11.19

First release.

Scientific Software - Peer-reviewed - Python
Published by GuillaumeLeGoc over 1 year ago