Arcos4py

Fixed
- scikit-image dependency version

Changed
- Updated transportation linking to use the POT library

Fixed
- Hard-coded column names in stats functions
- False example for a plot in the documentation

Changed
- Updated plotOriginalDetrended to include separate methods for plotting detrended and original data
- Updated plotOriginalDetrended to include markers for binarized regions
- changes to parameter names to unify naming conventions across packages
old Parameter names are still supported but will be deprecated in the future.
- updated documentation to reflect changes in parameter names
- Noodleplot supports kwargs for plot customization
- Changes to the way p value is represented on the validation plots
- Validation plots now dont include original metrics

Added
- Support for python 3.12
- Drop support for python 3.8

Fixed
- Noodle plot would produce an axis error if no collective events were detected
- Noodle plot would produce false results if object id was not an integer

Changed
- More input data validation for stats functions

Fixed
- Bug in eps estimation for DBSCAN clustering

Changed
- Updated input data validation for remove_background function
- ImageTracker, DataFrameTracker, remove_background can be imported from arcos4py.tools
- Updated api documentation

Added
- Added new function to calculate more statistics of collective events
- Added new function to calculate statistics per frame of collective events
- Accont for downsampling in in track_events_image fuction for parameters

Fixed
- patch for dependencies in pyproject.toml file

Added
- Funcionallity to directly apply ARCOS to images
- Simple movement predictor to improve tracking
- HDBSCAN as an alternative clustering method
- Transportation linking as an alternative linking method
- Preprocessing function for detrending of images
- Unit tests for image tracking
- Added optional Progressbar

Changed
- Refactorization of event detection to improve memory usage and simplify algorithm
- ARCOS main class now also supports event detection without specifying a tracking column
- Package is now tested on python 3.8 to 3.11 (dropped 3.7 and added 3.11)
- Event detection can now ingest data lazily
- Old detectCollev class is now deprecated in favor of track_events_image and track_events_dataframe