phenoEstimate: Estimate PhenoPath simulation parameters
In splatter: Simple Simulation of Single-cell RNA Sequencing Data

Description Usage Arguments Details Value Examples

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

phenoEstimate(counts, params = newPhenoParams())

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

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

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

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.

PhenoParams object containing the estimated parameters.

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

    params <- phenoEstimate(sce)
    params
}