Package: scGPS
Type: Package
Title: A complete analysis of single cell subpopulations, from identifying
    subpopulations to analysing their relationship
    (scGPS = single cell Global Predictions of Subpopulation)
Version: 1.17.0
Authors@R: c(
    person("Quan", "Nguyen", email="quan.nguyen@uq.edu.au", 
    role=c("aut", "cre")),
    person("Michael", "Thompson",role=c("aut")),
    person("Anne", "Senabouth",role=c("aut"))
    )
Description: The package implements two main algorithms to answer two key
    questions: a SCORE (Stable Clustering at Optimal REsolution) to find
    subpopulations, followed by scGPS to investigate the relationships between
    subpopulations.
Encoding: UTF-8
LazyData: true
License: GPL-3
BugReports: https://github.com/IMB-Computational-Genomics-Lab/scGPS/issues
url: https://github.com/IMB-Computational-Genomics-Lab/scGPS/
RoxygenNote: 7.1.1
Depends: R (>= 3.6), SummarizedExperiment, dynamicTreeCut, SingleCellExperiment
biocViews: SingleCell, Clustering, DataImport, Sequencing, Coverage
Imports:
  glmnet (> 2.0),
  caret (>= 6.0),
  ggplot2 (>= 2.2.1),
  fastcluster,
  dplyr,
  Rcpp,
  RcppArmadillo,
  RcppParallel,
  grDevices,
  graphics,
  stats,
  utils,
  DESeq2,
  locfit
Suggests:
  Matrix (>= 1.2),
  testthat,
  knitr,
  parallel,
  rmarkdown,
  RColorBrewer,
  ReactomePA,
  clusterProfiler,
  cowplot,
  org.Hs.eg.db,
  reshape2,
  xlsx,
  dendextend,
  networkD3,
  Rtsne,
  BiocParallel,
  e1071,
  WGCNA,
  devtools,
  DOSE
VignetteBuilder: knitr
LinkingTo: 
  Rcpp,
  RcppArmadillo,
  RcppParallel
SystemRequirements: GNU make