Package: shinyepico 1.15.0

Octavio Morante-Palacios

shinyepico: ShinyÉPICo

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.

Authors:Octavio Morante-Palacios [cre, aut]

shinyepico_1.15.0.tar.gz
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shinyepico_1.15.0.tgz(r-4.4-any)shinyepico_1.15.0.tgz(r-4.3-any)
shinyepico_1.15.0.tar.gz(r-4.5-noble)shinyepico_1.15.0.tar.gz(r-4.4-noble)
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shinyepico.pdf |shinyepico.html✨
shinyepico/json (API)
NEWS

# Install 'shinyepico' in R:
install.packages('shinyepico', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/omorante/shiny_epico/issues

On BioConductor:shinyepico-1.15.0(bioc 3.21)shinyepico-1.14.0(bioc 3.20)

differentialmethylationdnamethylationmicroarraypreprocessingqualitycontrol

5.00 score 5 stars 1 scripts 177 downloads 1 exports 199 dependencies

Last updated 2 months agofrom:072d986c97. Checks:OK: 6 ERROR: 1. Indexed: yes.

TargetResultDate
Doc / VignettesOKDec 14 2024
R-4.5-winOKDec 14 2024
R-4.5-linuxERRORDec 14 2024
R-4.4-winOKDec 14 2024
R-4.4-macOKDec 14 2024
R-4.3-winOKDec 14 2024
R-4.3-macOKDec 14 2024

Exports:run_shinyepico

Dependencies:abindannotateAnnotationDbiaskpassassertthatbase64base64encbeanplotBHBiobaseBiocGenericsBiocIOBiocParallelBiostringsbitbit64bitopsblobbslibbumphuntercacachemcallrcaToolsclicliprclustercodetoolscolorspacecommonmarkcpp11crayoncrosstalkcurldata.tableDBIDelayedArrayDelayedMatrixStatsdendextenddigestdoParalleldoRNGdplyrDTeggevaluatefansifarverfastmapfontawesomeforeachformatRfsfutile.loggerfutile.optionsgclusgenefiltergenericsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicFeaturesGenomicRangesGEOqueryggplot2gluegplotsgridExtragtablegtoolsHDF5Arrayheatmaplyhighrhmshtmltoolshtmlwidgetshttpuvhttrhttr2illuminaioIRangesisobanditeratorsjquerylibjsonliteKEGGRESTKernSmoothknitrlabelinglambda.rlaterlatticelazyevallifecyclelimmalocfitmagrittrMASSMatrixMatrixGenericsmatrixStatsmclustmemoisemgcvmimeminfimulttestmunsellnlmenor1mixopensslpermutepillarpkgconfigplogrplotlyplyrpngpreprocessCoreprettyunitsprocessxprogresspromisespspurrrqapquadprogR.methodsS3R.ooR.utilsR6rappdirsRColorBrewerRcppRCurlreadrregistryrentrezreshapereshape2restfulrrhdf5rhdf5filtersRhdf5libRhtslibrjsonrlangrmarkdownrngtoolsRsamtoolsRSQLitertracklayerrvestS4ArraysS4VectorssassscalesscrimeselectrseriationshinyshinycssloadersshinyjsshinythemesshinyWidgetssiggenessnowsourcetoolsSparseArraysparseMatrixStatsstatmodstringistringrSummarizedExperimentsurvivalsystibbletidyrtidyselecttinytexTSPtzdbUCSC.utilsutf8vctrsveganviridisviridisLitevroomwebshotwithrxfunXMLxml2xtableXVectoryamlzipzlibbioc

shinyÉPICo: the user's guide

Octavio Morante-Palacios, Esteban Ballestar

Rendered fromshiny_epico.Rmdusingknitr::rmarkdownon Dec 14 2024.

Last update: 2020-11-20
Started: 2020-03-27