shinyMethyl: Interactive visualization for Illumina methylation arrays

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

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("shinyMethyl")
AuthorJean-Philippe Fortin [cre, aut], Kasper Daniel Hansen [aut]
Bioconductor views DNAMethylation Microarray Preprocessing QualityControl TwoChannel
Date of publicationNone
MaintainerJean-Philippe Fortin <jfortin@jhsph.edu>
LicenseArtistic-2.0
Version1.10.0
https://github.com/Jfortin1/shinyMethyl

View on Bioconductor

Functions

combine Man page
combine,shinyMethylSet,shinyMethylSet-method Man page
getBeta Man page
getBeta,shinyMethylSet-method Man page
getCN Man page
getCN,shinyMethylSet-method Man page
getGreenControls Man page
getM Man page
getMeth Man page
getMeth,shinyMethylSet-method Man page
getM,shinyMethylSet-method Man page
getPCA Man page
getRedControls Man page
getUnmeth Man page
getUnmeth,shinyMethylSet-method Man page
orderByName Man page
pData Man page
pData,shinyMethylSet-method Man page
runShinyMethyl Man page
sampleNames Man page
sampleNames,shinyMethylSet-method Man page
shinyMethyl Man page
shinyMethyl-package Man page
shinyMethylSet Man page
shinyMethylSet-class Man page
shinySummarize Man page
shinySummarize,GenomicRatioSet-method Man page
shinySummarize-methods Man page
shinySummarize,RGChannelSet-method Man page
show,shinyMethylSet-method Man page

Files

.travis.yml
DESCRIPTION
NAMESPACE
R
R/plotControlProbes.R R/plotDensities.R R/plotDesign.R R/plotPCA.R R/plotQC.R R/plotSex.R R/runShinyMethyl.R R/server.R R/shinyMethylSet.R R/shinySummarize.R R/ui.R
README.md
build
build/vignette.rds
inst
inst/CITATION
inst/NEWS.Rd
inst/doc
inst/doc/shinyMethyl.R
inst/doc/shinyMethyl.Rnw
inst/doc/shinyMethyl.pdf
inst/testData
inst/testData/testData.R
inst/unitTests
inst/unitTests/testDigests.rda
inst/unitTests/test_shinySummarize.R
man
man/runShinyMethyl.Rd man/shinyMethyl-package.Rd man/shinyMethylSet-class.Rd man/shinySummarize-methods.Rd
tests
tests/runTests.R
vignettes
vignettes/figures
vignettes/figures/All.png
vignettes/figures/BothPlate.pdf
vignettes/figures/BothStatus.pdf
vignettes/screenshot_design.png
vignettes/screenshot_designbias.png
vignettes/screenshot_pca.png
vignettes/screenshot_qc.png
vignettes/screenshot_sexprediction.png
vignettes/shinyMethyl.Rnw
vignettes/shinyMethyl.bib

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.