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DESCRIPTION
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Package: methylscaper
Type: Package
Title: Visualization of Methylation Data
Description: methylscaper is an R package for processing and visualizing data jointly
profiling methylation and chromatin accessibility (MAPit, NOMe-seq, scNMT-seq, nanoNOMe,
etc.). The package supports both single-cell and single-molecule data, and
a common interface for jointly visualizing both data types through the generation of
ordered representational methylation-state matrices. The Shiny app allows for an
interactive seriation process of refinement and re-weighting that optimally
orders the cells or DNA molecules to discover methylation patterns and nucleosome
positioning.
Version: 1.13.3
Authors@R: c(person("Bacher", "Rhonda", email = "rbacher@ufl.edu", role = c("aut", "cre")), person("Parker", "Knight", role = c("aut")))
Depends: R (>= 4.4.0)
License: GPL-2
Encoding: UTF-8
Imports:
shiny,
shinyjs,
seriation,
BiocParallel,
seqinr,
Biostrings,
pwalign,
Rfast,
grDevices,
graphics,
stats,
utils,
tools,
methods,
shinyFiles,
data.table,
SummarizedExperiment
RoxygenNote: 7.3.2
Suggests:
BiocStyle,
knitr,
rmarkdown,
devtools,
R.utils
VignetteBuilder: knitr
biocViews:
DNAMethylation,
Epigenetics,
Sequencing,
Visualization,
SingleCell,
NucleosomePositioning
URL: https://github.com/rhondabacher/methylscaper/
BugReports: https://github.com/rhondabacher/methylscaper/issues