Changes in version 1.0.2                        

New Features

  - Added comprehensive vignettes:
    
      - Introduction to Connectome
      - Algorithm Principles and Mathematical Framework
      - Visualization Gallery
      - Differential Connectivity Analysis
      - Best Practices and Troubleshooting

  - Built pkgdown documentation site

Improvements

  - Improved cross-platform compatibility using Seurat::GetAssayData()
    instead of direct slot access
  - Replaced deprecated Seurat::SubsetData() with modern subset()
    approach
  - Replaced library() calls with requireNamespace() checks for better
    CRAN compliance
  - Fixed Inf value handling in differential analysis plots using
    is.infinite()
  - Updated ggplot2::element_rect() from deprecated size to linewidth
  - Replaced 1:length() patterns with safer seq_along() for boundary
    condition handling
  - Improved performance by replacing rbind() in loops with
    pre-allocation

Bug Fixes

  - Fixed scientific accuracy issue in DOR calculation by applying
    Haldane-Anscombe correction (pseudocount = 0.5)
  - Fixed PercentExpression function to use Seurat::Assays() instead of
    internal function

Documentation

  - Updated author information (Zaoqu Liu as maintainer)
  - Added GitHub repository URLs
  - Cleaned up function documentation

                        Changes in version 1.0.1                        

  - Initial release based on original Connectome package
  - Multi-species ligand-receptor database support (human, mouse, rat,
    pig)
  - Network construction and visualization functions
  - Differential connectivity analysis