Changes in version 1.5.1 (2026-01-30)                  

  - Updated ribiosNGS to fit the latest biokit output structure.
  - ggpubr is now only suggested, not imported.
  - Updated SLURM integration to work with latest HPC updates.

                 Changes in version 1.0-14 (2015-12-03)                 

  - Added truncatedDgeTable and writeTruncatedDgeTables.

                 Changes in version 1.0-13 (2015-08-11)                 

  - Replace NA with zero counts if needed.

                 Changes in version 1.0-12 (2015-06-12)                 

  - RiboSeq: fixed a bug in matching the two matrices by row names.

                 Changes in version 1.0-11 (2015-02-16)                 

  - Substantial update of S4 classes and functions.
  - Added annotate method.

                 Changes in version 1.0-7 (2014-11-03)                  

  - Added EdgeResult object.
  - Exported functions needed for MPS.

                 Changes in version 1.0-6 (2014-10-31)                  

  - Started using roxygen2 for documentation.
  - edgeR workflow wrapped into edgeBuild, edgeTest, and edgeRun.
  - Removed edge.DGE function (no longer used).

                 Changes in version 1.0-5 (2013-01-22)                  

  - pairs.Rscript moved to /SOFT/bi/apps/ribios/scripts/pairs.

                 Changes in version 1.0-4 (2012-09-10)                  

  - Bug fix: read.table in merge.Rscript does not recognize single quote
    as quote character.

                 Changes in version 1.0-3 (2012-06-19)                  

  - Modified merge.Rscript: suffixes do not cause error, -outfile can be
    missing (stdout as default), -noheader/-header is a mandatory
    parameter.

                 Changes in version 1.0-2 (2011-12-20)                  

  - Added documentation and testing data for edgeR.DGE.

                 Changes in version 0.99.0 (2026-02-14)                 

Bioconductor submission

  - Prepared package for Bioconductor submission.
  - Set version to 0.99.0 as required for new Bioconductor submissions.
  - Updated DESCRIPTION: expanded Description field, added biocViews,
    updated minimum R version to >= 4.4.0, added VignetteBuilder.
  - Added @return documentation tags to all exported functions.
  - Added introductory vignette with worked example.
  - Converted \dontrun{} to \donttest{} where appropriate.
  - Ensured par() settings are saved and restored via on.exit().
  - Added GitHub Actions CI workflow for R CMD check.