DESCRIPTION

Package: ImmuneSignatures2
Type: Package
Title: Pre-Processing for HIPC ImmuneSignatures2 Analysis
Version: 1.0.19
Authors@R: c(
    person("Ju Yeong", "Kim", email = "jkim2345@fredhutch.org", role = c("aut", "cre")),
    person("Helen", "Miller", role = "aut"),
    person("Evan", "Henrich", role = "aut"))
Description: This package provides the code needed to generate 
  the expressionSet objects used in the ImmuneSignatures2 analysis 
  by the Human Immunology Project Consortium.
biocViews: GeneExpression
Imports:
    ImmuneSpaceR,
    Rlabkey,
    data.table,
    dplyr,
    eulerr,
    ggbeeswarm,
    ggfortify,
    ggplot2,
    limma,
    methods,
    org.Hs.eg.db,
    rmarkdown,
    RAPToR,
    RColorBrewer,
    preprocessCore,
    stats,
    tibble,
    titer,
    boot,
    cluster,
    ComplexHeatmap,
    ggthemes,
    here,
    lme4,
    patchwork,
    pvca,
    qusage
Suggests:
    pheatmap,
    matrixStats,
    reshape2,
    metap,
    circlize,
    corrplot,
    ggpubr,
    tidyverse,
    GSVA,
    rlang,
    caret,
    caretEnsemble,
    WeightedROC,
    nlme,
    emmeans,
    plyr,
    plotROC,
    glue,
    biomaRt,
    MetaIntegrator,
    pROC,
    AnnotationDbi,
    Seurat,
    magrittr,
    ggrepel,
    colorspace,
    FSA,
    BuenColors,
    presto
Remotes: 
    helenmiller16/RAPToR, 
    dleelab/pvca,
    stefanavey/titer,
    caleblareau/BuenColors,
    immunogenomics/presto
License: GPL-2
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.2
Depends: 
    R (>= 3.6),
    Biobase