DESCRIPTION

Package: scMINER
Type: Package
Title: Single-cell Mutual Information-based Network Enginerring Ranger
Version: 1.1.0
Authors@R: c(
    person(given = "Qingfei", family = "Pan", email = "qingfei.pan@stjude.org", role = c("aut", "cre"), comment = c(ORCID = "0000-0003-0243-6898")),
    person(given = "Jiayu", family = "Zhou", email = "jiayu.zhou@stjude.org", role = c("aut")),
    person(given = "Liang", family = "Ding", email = "liang.ding@stjude.org", role = c("aut")),
    person(given = "Hao", family = "Shi", email = "hao.shi@stjude.org", role = c("aut")),
    person(given = "Xinran", family = "Dong", email = "xinran.done@foxmail.com", role = c("aut")),
    person("Yu Lab @ St Jude Children's Research Hospital", role = "fnd"))
Description: scMINER is a mutual information-based framework for single-cell/nucleus RNA-Seq data
    analysis. It enables the mutual information-based clustering, cell type-specific gene network
    reverse engineering and protein activity inference for not only transcriptional factors (TFs)
    but also signaling genes (SIGs) on a cell type-specific basis. scMINER can identify the hidden
    drivers underlying cellular lineage differentiation, tissue specification and beyond.
License: Apache License (>= 2)
Encoding: UTF-8
LazyData: TRUE
LazyDataCompression:xz
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.2
Depends: 
    R (>= 4.0),
    base (>= 4.2.2),
    Biobase (>= 2.50.0),
    Matrix (>= 1.5.3),
    methods (>= 4.0.3),
    ggplot2 (>= 3.3.3),
    stats (>= 4.0.3)
Imports: 
    anndata (>= 0.7.5.3),
    dplyr (>= 1.0.6),
    gridExtra (>= 2.3),
    igraph (>= 1.2.6),
    limma (>= 3.46.0),
    pheatmap (>= 1.0.12),
    reshape2 (>= 1.4.4),
    rmarkdown (>= 2.8),
    sessioninfo (>= 1.2.2),
    RColorBrewer
Suggests: 
    knitr,
    kableExtra,
    openxlsx (>= 4.2.5.2),
    hdf5r (>= 1.3.10),
    Seurat (>= 5.0.0),
    SuperCell (>= 1.0),
    testthat (>= 3.0.0)
Remotes:
  github::GfellerLab/SuperCell
VignetteBuilder: knitr
URL: https://jyyulab.github.io/scMINER/