v0.2.2

[0.2.2] - 2024-12-17

Added

• load_dataset: add custom_filter and dry_run arguments
• added min_prototypes_ratio argument in fine_tune to run init_slide_queue
• Added tutorials for proteins data + minor docs improvements

Fixed

• Ensure reset clustering if multiple zero-shot (#9)

Changed

• Removed the docs formatting (better for autocompletion)
• Reorder parameters in Novae __init__ (sorted by importance)

v0.2.0

[0.2.0] - 2024-12-03

Added

• novae.plot.connectivities(...) to show the cells neighbors
• novae.settings.auto_processing = False to enforce using your own preprocessing
• Tutorials update (more plots and more details)

Fixed

• Issue with library_id in novae.plot.domains (#8)
• Set pandas>=2.0.0 in the dependencies (#5)

Breaking changes

• novae.utils.spatial_neighbors must always be run, to force the user having more control on it
• For multi-slide mode, the slide_key argument should now be used in novae.utils.spatial_neighbors (and only there)
• Drop python 3.9 support (because dropped in anndata)

v0.1.0

[0.1.0] - 2024-09-11

First official novae release. Preprint coming soon.