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DESCRIPTION
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DESCRIPTION
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Package: SCP
Type: Package
Title: Single Cell Pipeline
Version: 0.5.6
Author: Hao Zhang
Maintainer: Hao Zhang <[email protected]>
Description: An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.
License: GPL (>= 3)
Encoding: UTF-8
LazyData: True
LazyDataCompression: xz
Depends:
R (>= 4.1.0)
biocViews: SingleCell, GeneExpression, SingleCellWorkflow, Visualization, ShinyApps
Imports:
AnnotationDbi,
biomaRt,
BiocParallel,
circlize,
clusterProfiler,
ComplexHeatmap (>= 2.13.0),
data.table,
dplyr (>= 1.1.0),
future,
future.apply,
ggnewscale,
ggplot2 (>= 3.4.0),
ggrepel,
ggforce,
GO.db,
GOSemSim,
grDevices,
grid,
gtable,
HDF5Array,
igraph,
intrinsicDimension,
methods,
mgcv,
Matrix,
patchwork,
pbapply,
png,
plotly,
proxyC,
R.cache,
R.utils,
reshape2,
reticulate,
rlang,
rhdf5,
scales,
simplifyEnrichment (>= 1.5.2),
slingshot,
Signac,
Seurat (>= 4.2.0),
SeuratObject,
uwot
Suggests:
AUCell,
batchelor,
Biobase,
BiocGenerics,
BiocManager,
concaveman,
conos,
covr,
cowplot,
dendextend,
destiny,
devtools,
DDRTree,
e1071,
ggpubr,
ggridges,
ggsignif,
ggupset,
ggVennDiagram,
ggwordcloud,
glmGamPoi,
glmpca,
harmony,
hexbin,
htmlwidgets,
httr,
metR,
monocle,
MatrixGenerics,
MASS,
NMF,
openxlsx,
org.Hs.eg.db,
org.Mm.eg.db,
promises,
purrr,
PFAM.db,
ragg,
reactome.db,
renv,
RcppParallel,
RcppML,
scattermore,
scds,
scDblFinder,
scmap,
sf,
shiny (>= 1.6.0),
styler,
stringr,
sva,
symphony,
S4Vectors,
SingleR,
SingleCellExperiment,
SummarizedExperiment,
testthat (>= 3.0.0),
tidyr,
umap,
UCell,
withr
LinkingTo: Rcpp
RoxygenNote: 7.2.3
Config/testthat/edition: 3
URL: https://github.com/zhanghao-njmu/SCP