DESCRIPTION

Package: HIPCMatrix
Title: Microarray and RNA-seq Processing for ImmuneSpace
Version: 1.1.6
Authors@R: c(person("Renan", "Sauteraud", role = "aut"),
             person("Evan", "Henrich", role = "aut"),
             person("Ju Yeong", "Kim", role = "aut"),
             person("Lauren", "Wolfe", role = "aut"),
             person("Helen", "Miller", role = "aut"),
             person("ImmuneSpace Package Maintainer",
                    email = "immunespace@gmail.com",
                    role = c("cre", "cph")))
Description: This package provides utilities for processing and analyzing bulk gene expression data for ImmuneSpace.
License: GPL-2
Encoding: UTF-8
LazyData: true
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.2
biocViews: DataImport, Preprocessing, Normalization
URL: https://github.com/RGLab/HIPCMatrix
Imports: 
    affy,
    Biobase,
    data.table,
    DESeq2,
    GEOquery,
    illuminaio,
    ImmuneSpaceR,
    limma,
    preprocessCore,
    Rlabkey,
    SummarizedExperiment,
    tools,
    gtools,
    R6,
    glmnet,
    digest
Suggests: 
    hgu133a2cdf,
    hgu133plus2cdf,
    hthgu133pluspmcdf,
    huex10stv2cdf,
    hugene10stv1cdf,
    hursta2a520709cdf,
    knitr,
    plyr,
    primeviewcdf,
    R.utils, 
    rmarkdown, 
    testthat (>= 3.0.0)
Config/testthat/edition: 3
VignetteBuilder: knitr
Depends: 
    R (>= 3.5)
Collate: 
    'HMX.R'
    'gene_set_enrichment_analysis.R'
    'gene_sets.R'
    'gene_symbol_mapping.R'
    'hmx_differential_expression.R'
    'hmx_feature_annotation.R'
    'immune_response_predictor.R'
    'make_raw_matrix.R'
    'meta_data.R'
    'normalize.R'
    'prepare_files.R'
    'runCreateMx.R'
    'summarize.R'
    'utils.R'