GenomicState 0.99.11

BUG FIXES

GenomicState now requires derfinder version 1.21.7 or newer to fix a bug on derfinder::makeGenomicState() introduced by the change in R 4.0 on the default behavior of data.frame(stringsAsFactors = FALSE) which used to be TRUE. This error didn't break derfinder but was breaking gencode_genomic_state().

GenomicState 0.99.10

SIGNIFICANT USER-VISIBLE CHANGES

Documentation website is now available at http://LieberInstitute.github.io/GenomicState/. It gets updated with every commit on the master branch (bioc-devel) using GitHub Actions and pkgdown.

GenomicState 0.99.5

SIGNIFICANT USER-VISIBLE CHANGES

The data is now live through AnnotationHub::AnnotationHub() and thus through GenomicStateHub(). The documentation now reflects this change.

GenomicState 0.99.2

SIGNIFICANT USER-VISIBLE CHANGES

Addressed issues reported at http://bioconductor.org/spb_reports/GenomicState_buildreport_20191007121957.html
Added the function GenomicStateHub() which will work once the data is uploaded to AnnotationHub.
Edited the vignette links.

GenomicState 0.99.1

BUG FIXES

Fixed some minor bugs.

GenomicState 0.99.0

NEW FEATURES

Added a NEWS.md file to track changes to the package.
Added the functions gencode_txdb(), gencode_annotated_genes() and gencode_genomic_state() for creating GenomicState objects from Gencode annotation files for human genome versions hg38 and hg19.
Added local_metadata() for finding the data locally, particularly at JHPCE.