Changes in version 1.28.2                        

SIGNIFICANT USER-VISIBLE CHANGES

  - Implement a workaround to
    https://github.com/lawremi/rtracklayer/issues/83 which currently is
    limiting the ability to remotely access BigWig files using
    rtracklayer::import(). This affects the functions
    recount::expressed_regions(), recount::coverage_matrix(), and
    derfinder::getRegionCoverage() used in recountWorkflow.

                       Changes in version 1.11.2                        

SIGNIFICANT USER-VISIBLE CHANGES

  - Documentation website is now available at
    http://LieberInstitute.github.io/recountWorkflow/. It gets updated
    with every commit on the master branch (bioc-devel) using GitHub
    Actions and pkgdown.
  - Added a NEWS.md file to track changes to the package.

BUG FIXES

  - Fix the spelling of RIN to rin now that all SRA columns are in lower
    case.
  - Fix the DESCRIPTION file (had a missing comma).

                       Changes in version 1.11.1                        

NEW FEATURES

  - Piggyback on GenomicState now that this package produces all the
    pieces needed for making the ER plots.
  - Potentially everything works on Windows now that
    rtracklayer::import.bw() seems to work there. But I haven't tested
    it.

BUG FIXES

  - Update SRARunTable.txt reading code since they changed the format on
    delivered by SRA. Adjust variables accordingly.

                        Changes in version 1.7.2                        

BUG FIXES

  - Fix the call to bumphunter::annotateTranscripts().
  - See
    https://gist.github.com/lcolladotor/196dabeb1ac628c35656bfa94b5d9577
    for more details.

                        Changes in version 1.7.1                        

BUG FIXES

  - Fix the ftp url for the Gencode v25 gtf file.

                        Changes in version 1.3.1                        

SIGNIFICANT USER-VISIBLE CHANGES

  - Use BiocManager

                       Changes in version 0.99.0                        

NEW FEATURES

  - Created the workflow.