Simulate Bulk RNA-seq Datasets from Single-Cell Datasets

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Documentation for package ‘SimBu’ version 1.11.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

census	Applies the Census count transformation on a count matrix
dataset	Build SummarizedExperiment using local annotation and count matrix R objects
dataset_h5ad	Build SummarizedExperiment using a h5ad file for the counts
dataset_merge	Merge multiple SummarizedExperiment datasets into one
dataset_seurat	Build SummarizedExperiment using a Seurat object
dataset_sfaira	Build SummarizedExperiment using a single sfaira entry ID
dataset_sfaira_multiple	Build SummarizedExperiment using multiple sfaira entries
merge_simulations	Combine multiple simulations into one result
plot_simulation	Plot the cell-type fractions in your simulated dataset
save_simulation	Save the expression matrix of a simulated pseudo-bulk dataset to a file
setup_sfaira	setup the sfaira package
sfaira_overview	Gives an overview of the possible datasets you can use from the sfaira database
SimBu	SimBu: Bias-aware simulation of bulk RNA-seq data with variable cell type composition
simulate_bulk	Simulate whole pseudo-bulk RNAseq dataset