# MetaProViz 3.99.40 (2026-02-18)

- New cluster_pk() function for clustering prior knowledge terms
- New viz_graph() function for network graph visualization
- SummarizedExperiment support extended to viz_superplot()
- Bug fixes in processing(), viz_volcano(), dma(), and ORA functions
- NA handling improvements for correlation analysis
- License changed from GPLv3 to BSD 3-clause
- Code quality improvements for Bioconductor compliance
- Added ggraph dependency
- Updated documentation and argument descriptions

# MetaProViz 3.99.10 (2025-10-28)

- SummarizedExperiment support as default input and output
- First candidate for Bioconductor submission

# MetaProViz 3.99.1 (2025-10-08)

- Fixed Bioconductor timeout issues
- Code refactoring to meet Bioconductor quality standards

# MetaProViz 3.99.0 (2025-09-30)

- General refactoring to meet Bioconductor checks
- RCMD check improvements
- Updated GitHub actions workflows

# MetaProViz 3.0.3 (2025-07-16)

- Enhanced `processing()` function to accept any column name
- Fixed bug in missing value imputation
- Updated README links

# MetaProViz 3.0.2 (2025-06-13)

- Extended sample-metadata vignette
- Revamped prior knowledge documentation

# MetaProViz 3.0.1 (2025-05-22)

- Major version increase with API overhaul
- Renamed parameters and functions following snake_case conventions for improved consistency
- Updated all documentation to reflect new naming conventions

# MetaProViz 2.1.7 (2025-04-01)

- Extended prior knowledge vignette
- Enhanced documentation
- Added new example datasets

# MetaProViz 2.1.6 (2025-02-28)

- Bug fix in `DMA()` function for non-CoRe datasets

# MetaProViz 2.1.5 (2025-02-21)

- User-requested bug fixes
- Added new `CheckIDMatch()` function

# MetaProViz 2.1.4 (2025-01-15)

- Added chemical class enrichment functionality
- New proteomics and transcriptomics example datasets

# MetaProViz 2.1.3 (2024-12-20)

- Updated parameter descriptions
- Improved `translateID()` function
- Fixed `PreProcessing()` issues

# MetaProViz 2.1.2 (2024-11-04)

- Added unit tests
- Updated parameter descriptions and dependencies
- Fixed TIC=FALSE error in preprocessing

# MetaProViz 2.1.1 (2024-10-24)

- Updated dependencies
- Improved `Processing()` function with bug fixes
- Enhanced figure formatting options
- Introduced GitHub actions

# MetaProViz 2.1.0 (2024-10-02)

- Updated visualization helper functions for ggplot2 compatibility
- Added metadata analysis features with new vignette
- Expanded prior knowledge options
- Added ID translation functionality

# MetaProViz 2.0.2 (2024-06-13)

- Introduced `VizSuperplot()` function
- Added vignette examples for superplots
- Modified `VizPCA()` and `VizVolcano()` helper functions

# MetaProViz 2.0.1 (2024-04-22)

- `PoolEstimation()` now saves PCA plots
- Enhanced `PreProcessing()` for CoRe data handling
- Improved blank sample processing

# MetaProViz 2.0.0 (2024-04-18)

- Parameter syntax redesign for more intuitive usage
- Implemented helper functions for data validation
- Added figure management functions
- Added HMDB IDs to metadata

# MetaProViz 1.0.1 (2024-01-30)

- Initial release adjustments
- Enabled alternate column names for conditions in sample settings

# MetaProViz 1.0.0 (2023-11-09)

- First stable release
- Core metabolomics preprocessing functionality
- Differential metabolite analysis
- Comprehensive visualization tools
- Prior knowledge integration
