Package: MethylAid
Type: Package
Title: Visual and interactive quality control of large Illumina DNA
        Methylation array data sets
Version: 1.44.0
Date: 2019-10-07
Authors@R: c(person("Maarten", "van Iterson",
        email="mviterson@gmail.com", role="cre"),
	person("Elmar", "Tobi", role="ctb"),
	person("Roderick", "Slieker", role="ctb"),
	person("Wouter", "den Hollander", role="ctb"),
	person("Rene", "Luijk", role="ctb"),
	person("Bas", "Heijmans", role="ctb"))
Author: Maarten van Iterson [aut, cre], Elmar Tobi[ctb], Roderick
        Slieker[ctb], Wouter den Hollander[ctb], Rene Luijk[ctb] and
        Bas Heijmans[ctb]
Maintainer: L.J.Sinke <L.J.Sinke@lumc.nl>
Description: A visual and interactive web application using RStudio's
        shiny package. Bad quality samples are detected using
        sample-dependent and sample-independent controls present on the
        array and user adjustable thresholds. In depth exploration of
        bad quality samples can be performed using several interactive
        diagnostic plots of the quality control probes present on the
        array. Furthermore, the impact of any batch effect provided by
        the user can be explored.
License: GPL (>= 2)
VignetteBuilder: knitr
biocViews: DNAMethylation, MethylationArray, Microarray, TwoChannel,
        QualityControl, BatchEffect, Visualization, GUI
Depends: R (>= 3.4)
Imports: Biobase, BiocParallel, BiocGenerics, ggplot2, grid, gridBase,
        grDevices, graphics, hexbin, matrixStats, minfi (>= 1.22.0),
        methods, RColorBrewer, shiny, stats, SummarizedExperiment,
        utils
Suggests: BiocStyle, knitr, MethylAidData, minfiData, minfiDataEPIC,
        RUnit
RoxygenNote: 6.0.1
Config/pak/sysreqs: make libbz2-dev libicu-dev liblzma-dev libpng-dev
        libxml2-dev libssl-dev libx11-dev zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 14:19:42 UTC
RemoteUrl: https://github.com/bioc/MethylAid
RemoteRef: RELEASE_3_22
RemoteSha: b29b80381bc6eb01edb77bb9ab9e4ba3c4edd6a2
NeedsCompilation: no
Packaged: 2025-11-11 21:35:48 UTC; root
Built: R 4.5.2; ; 2025-11-12 03:26:57 UTC; windows
