DESCRIPTION

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: 1.2.1
Depends: R (>= 4.0)
Authors@R: c(
	person("Helena L.", "Crowell", role=c("aut", "cre"), 
	    email="helena.crowell@uzh.ch"),
	person("Pierre-Luc", "Germain", role="aut"),
	person("Charlotte", "Soneson", role="aut"),
	person("Anthony", "Sonrel", role="aut"),
	person("Mark D.", "Robinson", role=c("aut", "fnd"), 
	    email="mark.robinson@imls.uzh.ch"))
Imports: 
	BiocParallel, blme, 
	ComplexHeatmap, 
	data.table, DESeq2, dplyr, 
	edgeR, 
	ggplot2, glmmTMB, grDevices, grid, 
	limma, lmerTest, lme4, 
	Matrix, matrixStats, methods, 
	progress, purrr, 
	S4Vectors, scales, scater, sctransform, stats, 
	SingleCellExperiment, SummarizedExperiment, 
	variancePartition, viridis
Suggests: 
	BiocStyle,
	countsimQC,
	cowplot, 
	ExperimentHub, 
	iCOBRA,
	knitr, 
	phylogram,
	RColorBrewer,
	reshape2, 
	rmarkdown,
	testthat, 
	UpSetR
biocViews: ImmunoOncology, DifferentialExpression, Sequencing, 
    SingleCell, Software, StatisticalMethod, Visualization
License: GPL (>= 2)
VignetteBuilder: knitr
RoxygenNote: 7.1.0
Encoding: UTF-8
LazyData: TRUE
URL: https://github.com/HelenaLC/muscat
BugReports: https://github.com/HelenaLC/muscat/issues