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DESCRIPTION
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DESCRIPTION
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Package: shinyepico
Title: ShinyÉPICo
Version: 1.13.0
Authors@R: person('Octavio', 'Morante-Palacios', email = 'octaviompa@gmail.com', role = c('cre', 'aut'))
Description: ShinyÉPICo is a graphical pipeline to analyze Illumina DNA methylation arrays (450k or EPIC). It allows to calculate differentially methylated positions and differentially methylated regions in a user-friendly interface. Moreover, it includes several options to export the results and obtain files to perform downstream analysis.
License: AGPL-3 + file LICENSE
Depends: R (>= 4.3.0)
Imports:
DT (>= 0.15.0),
data.table (>= 1.13.0),
doParallel (>= 1.0.0),
dplyr (>= 1.0.9),
foreach (>= 1.5.0),
GenomicRanges (>= 1.38.0),
ggplot2 (>= 3.3.0),
gplots (>= 3.0.0),
heatmaply (>= 1.1.0),
limma (>= 3.42.0),
minfi (>= 1.32.0),
plotly (>= 4.9.2),
reshape2 (>= 1.4.0),
rlang (>= 1.0.2),
rmarkdown (>= 2.3.0),
rtracklayer (>= 1.46.0),
shiny (>= 1.5.0),
shinyWidgets (>= 0.5.0),
shinycssloaders (>= 0.3.0),
shinyjs (>= 1.1.0),
shinythemes (>= 1.1.0),
statmod (>= 1.4.0),
tidyr (>= 1.2.0),
zip (>= 2.1.0)
Suggests:
knitr (>= 1.30.0),
mCSEA (>= 1.10.0),
IlluminaHumanMethylation450kanno.ilmn12.hg19,
IlluminaHumanMethylation450kmanifest,
IlluminaHumanMethylationEPICanno.ilm10b4.hg19,
IlluminaHumanMethylationEPICmanifest,
testthat,
minfiData,
BiocStyle
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
URL: https://github.com/omorante/shiny_epico
BugReports: https://github.com/omorante/shiny_epico/issues
VignetteBuilder: knitr
biocViews: DifferentialMethylation,DNAMethylation,Microarray,Preprocessing,QualityControl