New Features
Enhanced Brightfield Image Support
- White background handling for brightfield images eliminates black edge artifacts
- Configurable out-of-bounds pixel values (white balance)
- Prevents registration confusion from edge artifacts
LLM Methods Generator
- Automated methods section prompt for publications
- Automatically includes DOIs for datasets and tools used in ABBA
- Tracks and reports DeepSlice usage in registration workflow
- Copy-paste ready text for your preferred LLM
QuickNII Integration
- Import and export support for QuickNII projects (with JSON files) (Note: The export method resamples the original images)
- Automatic slicing angle adjustment for imported data
- Works with axis swapping (LR/RL orientations)
Standard Export System
This feature is still in an early experimental phase.
- New standardized export format that packages entire projects into shareable .zip files
- Includes resampled image data and project metadata
- Enables easy data sharing for publications
- Lays groundwork for collecting training datasets for deep learning registration methods
Channel Re-indexing for Batch Processing
When slices have inconsistent channel configurations (different channel numbers or orders), batch processing fails. You can now re-index channels across all slices to ensure uniform channel structure, making your dataset ready for automated batch processing.
User Interface Overhaul
Visual Improvements
- Light and dark themes with anti-aliasing
- New icons throughout the interface
- Right panel larger by default
- Unified color scheme management
Better User Experience
- Easy import of demo dataset for new users
- Drag-and-drop support for .qproj and ABBA state files into BDV window
- Improved error messages and warnings
Quality of Life Improvements
- Startup message system for version announcements and tips
- Better citation guidelines and formatting