Changes in version 0.99.6                        

Bug fixes

  - Corrected the pathway dot-plot heading and Visualization examples in
    the introductory vignette so all six plots are rendered.

                       Changes in version 0.99.5                        

Improvements

  - Added automated BiocCheck and cross-platform R CMD check workflows.
  - Added automatic pkgdown deployment after updates to devel.

                       Changes in version 0.99.4                        

Bug fixes

  - Made preprocessCLAMP() conditionally log2-transform and replace
    missing values before filtering, matching preprocessCLAMPFBM().
  - Made CLAMPplotU() handle missing FDR values when no pathways pass
    the requested thresholds.

                       Changes in version 0.99.0                        

New features

  - Initial Bioconductor submission.
  - Implements prior-informed latent variable decomposition for gene
    expression.
  - Supports file-backed matrices (bigstatsr::FBM) for large datasets.
  - Added CPM, z-score, and filtering functions for preprocessing.
  - Projection of new datasets into pre-trained models.
  - Vignettes with example workflows and detailed documentation.

Improvements

  - Optimized in-place operations for large matrices.
  - Added cross-validation utilities and adaptive sparsity support.
  - Roxygen2 documentation for all exported functions.

Bug fixes

  - Fixed edge case in CPM normalization for zero-count columns.
  - Corrected NA handling in preprocessing.