DESCRIPTION

Package: CIE
Title: Causal Inference and Directional Enrichment Methods on Biological Networks
Version: 1.0.0.0
Authors@R: c(person("Corey", "O'Connor", email = "corey.oconnor001@umb.edu", role = c("aut", "cre")), person("Kourosh", "Zarringhalam", email = "kourosh.zarringhalam@umb.edu", role = "aut"), person("Saman", "Farahmand", email = "saman.farahmand001@umb.edu", role = "aut"), person("Argenis", "Arriojas Maldonado", email="arriojasmaldonado001@umb.edu", role = "aut"),person("Yasaman", "Rezvani", email="yasaman.rezvani66@gmail.com", role = "aut"))
Description: This package allows for idenfiication of causual regulators responsible for gene expression differences observed through RNA-seq.  The user provides differential gene expression data and selects a database.  Enrichment is then performed to identify the key regulators.  We also support pathway enrichment on these regulators through Reactome and visualization of these regulators.
License: GNU General Public License, Version 3
Encoding: UTF-8
LazyData: true
Depends:
    R (>= 3.4.3),
    QuaternaryProd,
    fdrtool,
    dplyr,
    doParallel,
    parallel,
    multidplyr (>= 0.0.0.9000),
    rjson,
    RColorBrewer,
    readr,
    org.Hs.eg.db,
    GenomicRanges
Imports:
    DT,	
    shiny,
    shinycssloaders,
    shinyjs,
    utils,
    stringr
Suggests:
    rcytoscapejs
Remotes:
    bioc::3.6/QuaternaryProd,
    bioc::3.6/GenomicRanges,
    github::hadley/multidplyr
Maintaner: Corey O'Connor <corey.oconnor001@umb.edu>	  
RoxygenNote: 6.1.1