simpleSimulate {splatter} | R Documentation

## Simple simulation

### Description

Simulate counts from a simple negative binomial distribution without simulated library sizes, differential expression etc.

### Usage

    simpleSimulate(
      params = newSimpleParams(),
      sparsify = TRUE,
      verbose = TRUE,
      ...
    )

### Arguments

`params` | SimpleParams object containing simulation parameters.
`sparsify` | logical. Whether to automatically convert assays to sparse matrices if there will be a size reduction.
`verbose` | logical. Whether to print progress messages
`...` | any additional parameter settings to override what is provided in `params`.

### Details

Gene means are simulated from a gamma distribution with `shape = mean.shape` and `rate = mean.rate`. Counts are then simulated from a negative binomial distribution with `mu = means` and `size = 1 / counts.disp`. See `SimpleParams` for more details of the parameters.

### Value

SingleCellExperiment containing simulated counts

### Examples

    sim <- simpleSimulate()
    # Override default parameters
    sim <- simpleSimulate(nGenes = 1000, nCells = 50)

[Package splatter version 1.14.1 Index]