Package: sake
Type: Package
Title: Single-cell RNA-Seq Analysis and Klustering Evaluation
Version: 0.4.0
date: "`r format(Sys.time(), '%d %B, %Y')`"
Authors@R: c(
    person("Yu-Jui", "Ho", email = "naikai@gmail.com", role = c("aut", "cre")),
    person("David", "Molik", email = "dmolik@nd.edu", role = "aut"),
    person("Toby", "Aicher", email = "tpaicher@gmail.com", role = "aut"),
    person("Molly", "Hammell", email = "mhammell@cshl.edu", role = "aut")
    )
Description: This tool can help you quickly navigate through the expression profile,
    Using NMF method for unsupervised clustering.
URL: http://github.com/naikai/sake
BugReports: http://github.com/naikai/sake/issues
Remotes:
    hadley/devtools,
    Bioconductor-mirror/biomaRt,
    renozao/pkgmaker@develop,
    renozao/NMF,
    bmbolstad/preprocessCore,
    tidyverse/ggplot2@bd7d9d6,
    ropensci/plotly@5b4606c,
    rstudio/DT,
    rstudio/d3heatmap@colorlabels
Depends:
    R (>= 3.1.0),
    NMF (>= 0.20),
    dplyr (>= 0.4.3)
Imports:
    AnnotationHub,
    biomaRt (>= 2.30),
    caret,
    corrplot,
    d3heatmap,
    data.table,
    DESeq2,
    GO.db,
    matrixStats,
    pathview,
    RcppArmadillo,
    Rtsne,
    shiny,
    shinythemes,
    shinyBS,
    shinydashboard,
    snowfall,
    tidyr,
    tools,
    networkD3
Suggests:
    annotate,
    BiocParallel,
    caret,
    dendextend,
    devtools,
    gage,
    gageData,
    grid,
    hgu133a.db,
    hgu133a2.db,
    hgu133b.db,
    hgu133plus2.db,
    htmlwidgets,
    HiClimR,
    irr,
    RColorBrewer,
    rmarkdown,
    testthat,
    vcd,
    WGCNA,
    webshot,
    knitr
License: GPL (>=2)
LazyData: TRUE
RoxygenNote: 5.0.1
VignetteBuilder: knitr
