Changes in version 0.99.12                       

Bug Fixes

  - Supply meme_path and verbose to second motif_enrichment call in
    get_df_enrichment.

Miscellaneous

  - Update example reports.
  - Add new author.
  - Add BioConductor installation instructions to README.

                       Changes in version 0.99.11                       

Miscellaneous

  - Correct "de-novo motif discovery" term to "motif discovery". STREME
    does not perform de-novo motif discovery.
  - Add package version to report header.

                       Changes in version 0.99.10                       

Bug Fixes

  - Fix download_button() error when downloadthis package is not
    available.

                       Changes in version 0.99.8                        

Miscellaneous

  - Optimise examples and remove \donttest{} blocks.
  - Add GitHub Actions for rworkflows without MEME Suite.

                       Changes in version 0.99.7                        

New Features

  - Replace workers argument with BPPARAM. Give users more control over
    the BiocParallel implementation.

Miscellaneous

  - Remove cat() calls in functions.
  - Implement helper check_input() to validate input before passing them
    to other functions.
  - Run examples and tests only if MEME Suite is detected (only for
    functions which require MEME Suite).

                       Changes in version 0.99.6                        

Miscellaneous

  - Replace magrittr import by dplyr::%>%.
  - Reduce the number of exported functions.
  - Move utility functions to 'utilities.R'.
  - Allow vignettes to run without MEME suite installed.
  - Remove stopper() wrapper around stop().
  - Use message() for parallel executions

                       Changes in version 0.99.4                        

Miscellaneous

  - Switch to a smaller file to download in check_ENCODE example.
  - Move some code outside \donttest{} to prevent BiocCheck() error
    about missing examples.

                       Changes in version 0.99.3                        

Miscellaneous

  - Wrap certain examples under \donttest{} to reduce R CMD CHECK
    runtime.
  - [GitHub] Add CODECOV_TOKEN secret to rworkflows.
  - Skip running tests which require download if offline.

                       Changes in version 0.99.2                        

Miscellaneous

  - Substitute system() with system2().
  - Reduce denovo_motifs in examples and tests to reduce R CMD CHECK
    runtime.
  - Add .BBSoptions to .Rbuildignore.

                       Changes in version 0.99.1                        

Miscellaneous

  - .BBSoptions added to skip Windows builders on Bioconductor.

                       Changes in version 0.99.0                        

New features

  - MotifPeeker submitted to Bioconductor.