NEWS
beer 1.15.1 (2025-11-04)
- Updated NEWS versioning to reflect Bioconductor updates.
- Updated mislabeled progressr::progress dependency.
beer 1.1.4 (2022-06-30)
- Updated vignette to demonstrate how 'beer' can interface with other packages such as 'coda', 'bayesplot', or 'tidybayes' to visualize MCMC convergence.
beer 1.1.3 (2022-06-26)
- Added helper for plotting observed versus expected read counts ('getExpected()')
- Added helper for plotting Bayes factors ('getBF()')
beer 1.1.2 (2022-06-06)
- Added 'codetools' to 'Suggests' for 'BiocParallel' dependency.
beer 1.1.1 (2022-06-06)
- Added support for running 'edgeR' with 'glmQLFTest' instead of 'exactTest'.
beer 0.99.8 (2022-02-14)
- Fixed minor bugs with outdated arguments in the vignette.
beer 0.99.7 (2022-02-14)
- Changed 'bp.param' argument to be called 'BPPARAM' to be consistent with BiocParallel arguments.
beer 0.99.6 (2022-02-09)
- Corrected 'future' reference in 'README' to 'BiocParallel'
- Changed ordering of arguments to put those without defaults first.
beer 0.99.3 (2022-01-31)
- Documentation
* Corrected typos, formatting errors, and missing links.
* Modified 'DESCRIPTION' to include 'URL' and remove 'Collates'
* Removed directions for installing 'PhIPData' in the 'README' and Vignette.
* Added package citations for 'edgeR'.
* Added package man page.
* Additional details have been added to the documentation for 'phipseq_model.bugs'.
* Added citation.
- Code
* Standardized function names to use 'camelCase'.
* Standardized function arguments to use 'dot.case'.
* Though 'edgeROne()' and 'brewOne()' are not meant to be directly interfaced by the user, the two function names have been changed to reflect that they are still exported.
* Renamed 'edgeR()' to 'runEdgeR()' to be more descriptive.
* Corrected 'paste0()' that should have been 'file.path()'.
* Converted to 'BiocParallel' from 'future' for parallelization support.
beer 0.99.0 (2022-01-13)
- Submitted to Bioconductor