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DESCRIPTION
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DESCRIPTION
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Package: muscat
Title: Multi-sample multi-group scRNA-seq data analysis tools
Description: `muscat` provides various methods and visualization tools
for DS analysis in multi-sample, multi-group, multi-(cell-)subpopulation
scRNA-seq data, including cell-level mixed models and methods based on
aggregated “pseudobulk” data, as well as a flexible simulation platform
that mimics both single and multi-sample scRNA-seq data.
Type: Package
Version: 1.19.1
Depends: R (>= 4.4)
Authors@R: c(
person("Helena L.", "Crowell",
role=c("aut", "cre"),
email="[email protected]",
comment=c(ORCID="0000-0002-4801-1767")),
person("Pierre-Luc", "Germain", role="aut"),
person("Charlotte", "Soneson", role="aut"),
person("Anthony", "Sonrel", role="aut"),
person("Jeroen", "Gilis", role="aut"),
person("Davide", "Risso", role="aut"),
person("Lieven", "Clement", role="aut"),
person("Mark D.", "Robinson", role=c("aut", "fnd"),
email="[email protected]"))
Imports:
BiocParallel, blme,
ComplexHeatmap,
data.table, DESeq2, dplyr,
edgeR,
ggplot2, glmmTMB, grDevices, grid,
limma, lmerTest, lme4,
Matrix, matrixStats, methods,
progress, purrr,
rlang,
S4Vectors, scales, scater, scuttle, sctransform, stats,
SingleCellExperiment, SummarizedExperiment,
variancePartition, viridis
Suggests:
BiocStyle,
countsimQC,
ExperimentHub,
iCOBRA,
knitr,
patchwork,
phylogram,
RColorBrewer,
reshape2,
rmarkdown,
statmod,
stageR,
testthat,
UpSetR
biocViews: ImmunoOncology, DifferentialExpression, Sequencing,
SingleCell, Software, StatisticalMethod, Visualization
License: GPL-3
VignetteBuilder: knitr
RoxygenNote: 7.3.2
Encoding: UTF-8
URL: https://github.com/HelenaLC/muscat
BugReports: https://github.com/HelenaLC/muscat/issues