scDDSimulate {splatter} | R Documentation

## scDD simulation

### Description

Simulate counts using the scDD method.

### Usage

    scDDSimulate(params = newSCDDParams(), plots = FALSE,
      plot.file = NULL, verbose = TRUE, BPPARAM = SerialParam(), ...)

### Arguments

`params` | SCDDParams object containing simulation parameters.
`plots` | logical. whether to generate scDD fold change and validation plots.
`plot.file` | File path to save plots as PDF.
`verbose` | logical. Whether to print progress messages
`BPPARAM` | A `BiocParallelParam` instance giving the parallel back-end to be used. Default is `SerialParam` which uses a single core.
`...` | any additional parameter settings to override what is provided in `params`.

### Details

This function is just a wrapper around `simulateSet` that takes a `SCDDParams`, runs the simulation then converts the output to a `SingleCellExperiment` object. See `simulateSet` for more details about how the simulation works.

### Value

SingleCellExperiment containing simulated counts

### References

Korthauer KD, Chu L-F, Newton MA, Li Y, Thomson J, Stewart R, et al. A statistical approach for identifying differential distributions in single-cell RNA-seq experiments. Genome Biology (2016).

Paper: 10.1186/s13059-016-1077-y

Code: https://github.com/kdkorthauer/scDD

### Examples

    ## Not run:
    sim <- scDDSimulate()

    ## End(Not run)

[Package splatter version 1.8.0 Index]