SCDDParams {splatter} | R Documentation

## The SCDDParams class

### Description

S4 class that holds parameters for the scDD simulation.

### Parameters

The SCDD simulation uses the following parameters:

`nGenes`

  The number of genes to simulate (not used).

`nCells`

  The number of cells to simulate in each condition.

`[seed]`

  Seed to use for generating random numbers.

`SCdat`

  `SingleCellExperiment` containing real data.

`nDE`

  Number of DE genes to simulate.

`nDP`

  Number of DP genes to simulate.

`nDM`

  Number of DM genes to simulate.

`nDB`

  Number of DB genes to simulate.

`nEE`

  Number of EE genes to simulate.

`nEP`

  Number of EP genes to simulate.

`[sd.range]`

  Interval for fold change standard deviations.

`[modeFC]`

  Values for DP, DM and DB mode fold changes.

`[varInflation]`

  Variance inflation factors for each condition. If all equal to 1 will be set to `NULL` (default).

`[condition]`

  String giving the column that represents biological group of interest.

The parameters not shown in brackets can be estimated from real data using `scDDEstimate`. See `simulateSet` for more details about the parameters. For details of the Splatter implementation of the scDD simulation see `scDDSimulate`.

[Package splatter version 1.18.2 Index]