Package: shinyMethyl 1.49.0

Jean-Philippe Fortin

shinyMethyl: Interactive visualization for Illumina methylation arrays

Interactive tool for visualizing Illumina methylation array data. Both the 450k and EPIC array are supported.

Authors:Jean-Philippe Fortin [cre, aut], Kasper Daniel Hansen [aut]

shinyMethyl_1.49.0.tar.gz
shinyMethyl_1.49.0.zip(r-4.7)shinyMethyl_1.49.0.zip(r-4.6)shinyMethyl_1.49.0.zip(r-4.5)
shinyMethyl_1.49.0.tgz(r-4.6-any)shinyMethyl_1.49.0.tgz(r-4.5-any)
shinyMethyl_1.49.0.tar.gz(r-4.7-any)shinyMethyl_1.49.0.tar.gz(r-4.6-any)
shinyMethyl_1.49.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
shinyMethyl/json (API)
NEWS

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

Bug tracker:https://github.com/jfortin1/shinymethyl/issues

On BioConductor:shinyMethyl-1.49.0(bioc 3.24)shinyMethyl-1.48.0(bioc 3.23)

dnamethylationmicroarraytwochannelpreprocessingqualitycontrolmethylationarray

7.34 score 6 stars 52 scripts 596 downloads 18 mentions 16 exports 150 dependencies

Last updated from:a5574f4fcf. Checks:1 WARNING, 7 NOTE, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksWARNING374
linux-devel-x86_64NOTE647
source / vignettesOK512
linux-release-x86_64NOTE611
macos-release-arm64NOTE338
macos-oldrel-arm64NOTE372
windows-develNOTE477
windows-releaseNOTE453
windows-oldrelNOTE523
wasm-releaseOK293

Exports:combinegetBetagetCNgetGreenControlsgetMgetMethgetPCAgetRedControlsgetUnmethorderByNamepDatarunShinyMethylsampleNamesshinyMethylSetshinySummarizeshow

Dependencies:abindannotateAnnotationDbiaskpassbase64base64encbeanplotBHBiobaseBiocBaseUtilsBiocGenericsBiocIObiocmakeBiocParallelBiostringsbitbit64bitopsblobbslibbumphuntercachemcigarilloclicliprcodetoolscommonmarkcpp11crayoncurldata.tableDBIDelayedArrayDelayedMatrixStatsdigestdir.expirydoRNGdplyrfastmapfilelockfontawesomeforeachformatRfsfutile.loggerfutile.optionsgenefiltergenericsGenomicAlignmentsGenomicFeaturesGenomicRangesGEOqueryglueh5mreadHDF5Arrayhmshtmltoolshttpuvhttrhttr2illuminaioIRangesiteratorsjquerylibjsonliteKEGGRESTlambda.rlaterlatticelifecyclelimmalocfitmagrittrMASSMatrixMatrixGenericsmatrixStatsmclustmemoisemimeminfimulttestnlmenor1mixopensslotelpillarpkgconfigplyrpngpreprocessCoreprettyunitsprogresspromisespurrrquadprogR.methodsS3R.ooR.utilsR6rappdirsRColorBrewerRcppRCurlreadrrentrezreshaperestfulrrhdf5rhdf5filtersRhdf5libRhtslibrjsonrlangrngtoolsRsamtoolsRSQLitertracklayerrvestS4ArraysS4VectorssassscrimeselectrSeqinfoshinysiggenessnowsourcetoolsSparseArraysparseMatrixStatsstatmodstringistringrSummarizedExperimentsurvivalsystibbletidyrtidyselecttzdbutf8vctrsvroomwithrXMLxml2xtableXVectoryaml

shinyMethyl: interactive visualization of Illumina 450K methylation arrays

Jean-Philippe Fortin, Kasper Daniel Hansen

Rendered fromshinyMethyl.Rmdusingknitr::rmarkdownon Jun 02 2026.

Last update: 2022-11-27
Started: 2022-11-27

Readme and manuals

Help Manual

Help pageTopics
Run the interactive shinyMethyl sessionrunShinyMethyl
shinyMethylSet instancescombine combine,shinyMethylSet,shinyMethylSet-method getBeta getBeta,shinyMethylSet-method getCN getCN,shinyMethylSet-method getGreenControls getM getM,shinyMethylSet-method getMeth getMeth,shinyMethylSet-method getPCA getRedControls getUnmeth getUnmeth,shinyMethylSet-method orderByName pData pData,shinyMethylSet-method sampleNames sampleNames,shinyMethylSet-method shinyMethylSet shinyMethylSet-class show,shinyMethylSet-method
Summarizing a large 450K experiment into a shinyMethylSetshinySummarize shinySummarize,GenomicRatioSet-method shinySummarize,RGChannelSet-method shinySummarize-methods