BASiCS simulation

Simulate counts using the BASiCS method.

BASiCSSimulate(params = newBASiCSParams(), verbose = TRUE, ...)

Arguments

params	BASiCSParams object containing simulation parameters.
verbose	logical. Whether to print progress messages
...	any additional parameter settings to override what is provided in params.

Value

SingleCellExperiment containing simulated counts

Details

This function is just a wrapper around BASiCS_Sim that takes a BASiCSParams, runs the simulation then converts the output to a SingleCellExperiment object. See BASiCS_Sim for more details of how the simulation works.

References

Vallejos CA, Marioni JC, Richardson S. BASiCS: Bayesian Analysis of Single-Cell Sequencing data. PLoS Computational Biology (2015).

Paper: 10.1371/journal.pcbi.1004333

Code: https://github.com/catavallejos/BASiCS

Examples

if (requireNamespace("BASiCS", quietly = TRUE)) {
    sim <- BASiCSSimulate()
}
#> Getting parameters...
#> Warning: Number of gene.params not equal to nGenes, gene.params will be sampled.
#> Warning: Number of cell.params not equal to nCells, cell.params will be sampled.
#> Simulating counts with BASiCS...
#> Creating final dataset...
#> Done!