ELMER/DESCRIPTION at master · tiagochst/ELMER · GitHub

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Package: ELMER
Title:
    Inferring Regulatory Element Landscapes and Transcription Factor
    Networks Using Cancer Methylomes
Version: 2.35.1
Authors@R: c( person("Tiago","Chedraoui Silva", role = c("aut","cre"), email = "tiagochst@gmail.com"),
           person("Lijing", "Yao", role = "aut", email = "lijingya@usc.edu"),
		       person("Simon","Coetzee", role = c("aut"), email = "Simon.Coetzee@cshs.org"),
		       person("Nicole", "Gull", role = "ctb"),
		       person("Hui", "Shen", role = "ctb"),
		       person("Peter", "Laird", role = "ctb"),
		       person("Peggy", "Farnham", role = "aut"),
		       person("Dechen", "Li", role = "ctb"),
		       person("Benjamin", "Berman", role = "aut")
		       )
Maintainer:
 Tiago Chedraoui Silva <tiagochst@gmail.com>
Description: ELMER is designed to use DNA methylation and gene expression from a
    large number of samples to infere regulatory element landscape and transcription
    factor network in primary tissue.
Depends:
    R (>= 3.4.0),
    ELMER.data (>= 2.9.3)
License: GPL-3
LazyData: true
VignetteBuilder: knitr
Imports:
    GenomicRanges,
    ggplot2,
    reshape,
    grid,
    grDevices,
    graphics,
    methods,
    parallel,
    stats,
    utils,
    IRanges,
    Seqinfo,
    S4Vectors,
    GenomicFeatures,
    TCGAbiolinks (>= 2.23.7),
    plyr,
    Matrix,
    dplyr,
    Gviz,
    ComplexHeatmap,
    circlize,
    MultiAssayExperiment,
    SummarizedExperiment,
    biomaRt,
    doParallel,
    downloader,
    ggrepel,
    lattice,
    magrittr,
    readr,
    scales,
    rvest,
    xml2,
    plotly,
    gridExtra,
    rmarkdown,
    stringr,
    tibble,
    tidyr,
    progress,
    purrr,
    reshape2,
    ggpubr,
    rtracklayer (>= 1.61.2),
    DelayedArray
Suggests:
    BiocStyle,
    AnnotationHub,
    ExperimentHub,
    knitr,
    testthat,
    data.table,
    DT,
    GenomicInteractions,
    webshot,
    R.utils,
    covr,
    sesameData
biocViews:
    DNAMethylation,
    GeneExpression,
    MotifAnnotation,
    Software,
    GeneRegulation,
    Transcription,
    Network
Encoding: UTF-8
RoxygenNote: 7.2.3