NEWS
recountWorkflow 1.29.2
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.
recountWorkflow 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).
recountWorkflow 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.
recountWorkflow 1.7.2
BUG FIXES
- Fix the call to bumphunter::annotateTranscripts().
- See https://gist.github.com/lcolladotor/196dabeb1ac628c35656bfa94b5d9577 for more details.
recountWorkflow 1.7.1
BUG FIXES
- Fix the ftp url for the Gencode v25 gtf file.
recountWorkflow 1.3.1
SIGNIFICANT USER-VISIBLE CHANGES
recountWorkflow 0.99.0
NEW FEATURES