DESCRIPTION

Package: HPCell
Title: Massively-parallel R native pipeline for single-cell analysis
Version: 0.3.13
Authors@R: c(person("Stefano", "Mangiola", email = "mangiolastefano@gmail.com",
                  role = c("aut", "cre")),
                  person("Jiayi", "Si", email = "si.j@wehi.edu.au",
                  role = c("aut"))
                  )
Description: Massively-parallel R native pipeline for single-cell analysis.
License: GPL-3 
Roxygen: list(markdown = TRUE)
Depends: 
    R (>= 4.2.0)
Remotes: 
    sqjin/CellChat,
    satijalab/seurat@seurat5,
    satijalab/seurat-data@seurat5,
    satijalab/azimuth@master,
    mojaveazure/seurat-disk@master
Biarch: true
Imports:
  targets,
  tarchetypes,
  crew,
  crew.cluster,
  tidybulk,
  tidySummarizedExperiment,
  tidySingleCellExperiment,
  SummarizedExperiment, 
  edgeR,
  Seurat (>= 5.0.0),
  Matrix (>= 1.6),
  dplyr, 
  tidyr, 
  glue,
  stringr,
  tidyseurat,
  purrr,
  readr,
  patchwork,
  tibble,
  DropletUtils,
  EnsDb.Hsapiens.v86,
  scater,
  SingleR,
  celldex,
  scuttle,
  gridGraphics,
  scDblFinder,
  magrittr,
  rlang, 
  S4Vectors, 
  BiocGenerics, 
  AnnotationDbi, 
  broom,
  digest, 
  cowplot, 
  igraph, 
  callr, 
  circlize, 
  future.apply, 
  ids, 
  RColorBrewer,
  digest, 
  cowplot, 
  igraph, 
  reshape2,
  callr,
  future,
  methods,
  pbapply,
  reshape2,
  scales,
  data.table, 
  ggplot2, 
  ggupset, 
  here, 
  qs,
  ensembldb,
  Azimuth,
  DelayedArray,
  HDF5Array, 
  SeuratObject,
  SingleCellExperiment, 
  biomaRt, 
  lme4, 
  tidyselect
Suggests: 
    testthat(>= 3.0.0), 
    scRNAseq,
    irlba,
    SeuratDisk,
    zellkonverter
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.3.2
SystemRequirements: GNU make
biocViews: 
    ImmunoOncology, 
    Normalization, 
    Sequencing, 
    RNASeq, 
    Software, 
    GeneExpression,
    Transcriptomics, 
    SingleCell, 
    Clustering
LazyDataCompression: xz
Config/testthat/edition: 3