Releases: rcavalcante/annotatr
Releases · rcavalcante/annotatr
annotatr v1.1.12
- Documentation updates.
annotatr v1.1.11
- Add a function to build annotations from AnnotationHub resources,
build_ah_annots()
. - Change
supported_annotations()
andsupported_genomes()
intobuiltin_annotations()
andbuiltin_genomes()
. This enables more flexibility required for AnnotationHub annotations. - Fix a bug in lncRNA annotation building caused by incomplete reference.
annotatr v1.1.10
- Update internal function documentation, specifically those functions related to HMM annotations. Want to avoid any WARNINGs in the builds.
NOTE: Builds of this release fail in Rdevel and Bioc 3.5, but is fine in R 3.3.z and Bioc 3.4.
annotatr v1.1.9
- Use rtracklayer::liftOver to lift FANTOM5 enhancers in hg19 and mm9 to h38 and mm10.
- Update documentation and vignette.
NOTE: Builds of this release fail in Rdevel and Bioc 3.5, but is fine in R 3.3.z and Bioc 3.4.
annotatr v1.1.8
- Require GenomeInfoDb >= 1.10.3
NOTE: Builds of this release fail in Rdevel and Bioc 3.5, but is fine in R 3.3.z and Bioc 3.4.
annotatr v1.1.7
- Change instances of
scale_fill_brewer()
toscale_fill_hue()
.scale_fill_brewer()
has a limit of 9 categories, and in many cases, this is too few.
annotatr v1.1.6
supported_annotations()
are now correctly given. In previous versions I mistakenly included CpG features for dm3 and dm6.- Also included tests for building all
supported_annotations()
. - Comment out
build_annotations()
tests to save time on remote build environments.
annotatr v1.1.4
- Add chromHMM chromatin states for the 9 cell lines in hg19 for which they are available.
- Shortcut codes are of the form
hg19_Gm12878-chromatin
, and class codes are of the formhg19_chromatin_Gm12878-StrongEnhancer
. - Added tests and a blurb to the vignette.
annotatr v1.1.3
- Add support for CpG annotations for hg38, mm10, and rn6 via the UCSC goldenpath URLs.
- Consequently, require
readr
as a dependency to get data from the URL. - Once these resources are added to
AnnotationHub
this method of retrieval will be removed.
- Consequently, require
- Minor vignette updates.