phenoEstimate {splatter} | R Documentation

## Estimate PhenoPath simulation parameters

### Description

Estimate simulation parameters for the PhenoPath simulation from a real dataset.

### Usage

    phenoEstimate(counts, params = newPhenoParams())

    ## S3 method for class 'SingleCellExperiment'
    phenoEstimate(counts, params = newPhenoParams())

    ## S3 method for class 'matrix'
    phenoEstimate(counts, params = newPhenoParams())

### Arguments

`counts` | either a counts matrix or an SingleCellExperiment object containing count data to estimate parameters from.
`params` | PhenoParams object to store estimated values in.

### Details

The `nGenes` and `nCells` parameters are taken from the size of the input data. The total number of genes is evenly divided into the four types. See `PhenoParams` for more details on the parameters.

### Value

PhenoParams object containing the estimated parameters.

### Examples

    if (requireNamespace("phenopath", quietly = TRUE)) {
        # Load example data
        library(scater)
        set.seed(1)
        sce <- mockSCE()

        params <- phenoEstimate(sce)
        params
    }

[Package splatter version 1.14.1 Index]