Package: fcoex
Title: FCBF-based Co-Expression Networks for Single Cells 
Version: 1.12.0
Authors@R: c(person("Tiago", "Lubiana", email = "tiago.lubiana.alves@usp.br",
  role = c("aut", "cre")), person("Helder", "Nakaya", email = "hnkaya@usp.br",
  role = c("aut","ths")))
Description: The fcoex package implements an easy-to use interface to co-expression analysis based on the FCBF (Fast Correlation-Based Filter) algorithm. it was implemented especifically to deal with single-cell data. The modules found can be used to redefine cell populations, unrevel novel gene associations and predict gene function by guilt-by-association. The package structure is adapted from the CEMiTool package, relying on visualizations and code designed and written by CEMiTool's authors.
Depends: R (>= 4.1)
Imports: 
    FCBF,
    parallel,
    progress,
    dplyr,
    ggplot2,
    ggrepel,
    igraph, 
    grid,
    intergraph, 
    stringr, 
    clusterProfiler, 
    data.table, 
    grDevices, 
    methods, 
    network, 
    scales, 
    sna, 
    utils, 
    stats, 
    SingleCellExperiment, 
    pathwayPCA,
    Matrix
Suggests: 
    testthat (>= 2.1.0),
    devtools,
    BiocManager,
    TENxPBMCData,
    scater,
    schex,
    gridExtra,
    scran,
    Seurat,
    knitr,
    rmarkdown
License: GPL-3
Encoding: UTF-8
biocViews: GeneExpression, Transcriptomics, GraphAndNetwork,
	mRNAMicroarray, RNASeq, Network, NetworkEnrichment, Pathways, ImmunoOncology, SingleCell
LazyData: true
RoxygenNote: 7.1.2
VignetteBuilder: knitr