DESCRIPTION

Package: miloDE
Title: Sensitive DE testing using neighbourhoods instead of discrete clusters
Version: 0.0.0.9000
Authors@R: 
    person("Alsu", "Missarova", , "alsu@ebi.ac.uk", role = c("aut", "cre"),
           comment = c(ORCID = "YOUR-ORCID-ID"))
Description: Sensitive DE testing using neighbourhoods instead of discrete clusters.
License: MIT + file LICENSE
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.0
Imports: 
    dplyr,
    ggplot2,
    ggpubr,
    Matrix,
    scuttle,
    SingleCellExperiment,
    SummarizedExperiment,
    stats,
    tibble,
    RcppGreedySetCover,
    igraph,
    miloR,
    edgeR, 
    Augur,
    S4Vectors,
    reshape2,
    ggraph,
    grDevices,
    BiocParallel,
    RColorBrewer,
    methods,
    ggbeeswarm,
    limma
Remotes:
    github::neurorestore/Augur,
    github::Bioconductor/MatrixGenerics,
    github::const-ae/sparseMatrixStats
Depends: 
    R (>= 2.10)
Suggests: 
    rmarkdown,
    knitr,
    testthat (>= 3.0.0),
    scran,
    Seurat,
    scWGCNA,
    uwot,
    MouseGastrulationData,
    viridis
VignetteBuilder: knitr
LazyData: true
Config/testthat/edition: 3