bioc-issue-bot
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1 year ago Hi @da-bar
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The DESCRIPTION file for this package is:
Package: JASPAR2024
Type: Package
Title: Data package for JASPAR database (version 2024)
Version: 0.99.1
Authors@R: person(given = "Damir", family = "Baranasic", role = c("aut", "cre"),
email = "damir.baranasic@lms.mrc.ac.uk",
comment = c(ORCID = "0000-0001-5948-0932"))
Description: JASPAR (https://testjaspar.uio.no/) is a widely-used open-access
database presenting manually curated high-quality and non-redundant
DNA-binding profiles for transcription factors (TFs) across taxa.
In this 10th release and 20th-anniversary update, the CORE
collection has expanded with 329 new profiles. We updated three
existing profiles and provided orthogonal support for 72 profiles
from the previous release UNVALIDATED collection. Altogether, the
JASPAR 2024 update provides a 20 percent increase in CORE profiles
from the previous release. A trimming algorithm enhanced profiles
by removing low information content flanking base pairs, which were
likely uninformative (within the capacity of the PFM models) for
TFBS predictions and modelling TF-DNA interactions. This release
includes enhanced metadata, featuring a refined classification for
plant TFs structural DNA-binding domains. The new JASPAR
collections prompt updates to the genomic tracks of predicted
TF-binding sites in 8 organisms, with human and mouse tracks
available as native tracks in the UCSC Genome browser. All data are
available through the JASPAR web interface and programmatically
through its API and the updated Bioconductor and pyJASPAR packages.
Finally, a new TFBS extraction tool enables users to retrieve
predicted JASPAR TFBSs intersecting their genomic regions of
interest.
Depends: R (>= 4.1.0), methods, BiocFileCache, utils
License: GPL-2
URL: https://testjaspar.uio.no//
NeedsCompilation: no
biocViews: AnnotationData, FunctionalAnnotation, AnnotationHub
LazyData: no
RoxygenNote: 7.2.3
Suggests:
knitr,
rmarkdown,
BiocStyle,
RSQLite
VignetteBuilder: knitr
lshep
hpages
da-bar
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