phenopath_estimation: Estimate Parameters From Real Datasets by phenopath

In duohongrui/simmethods: A collection of 40+ simulation methods for singlce-cell RNA seqencing data

Estimate Parameters From Real Datasets by phenopath

Description

This function is used to estimate useful parameters from a real dataset by using phenoEstimate function in Splatter package.

Usage

phenopath_estimation(ref_data, verbose = FALSE, seed)

Arguments

ref_data	A count matrix. Each row represents a gene and each column represents a cell.
verbose	Logical.
seed	An integer of a random seed.

Value

A list contains the estimated parameters and the results of execution detection.

References

Campbell K, Yau C. Uncovering genomic trajectories with heterogeneous genetic and environmental backgrounds across single-cells and populations. bioRxiv, 2017: 159913. https://doi.org/10.1101/159913

Bioconductor URL: https://bioconductor.org/packages/release/bioc/html/phenopath.html

Github URL: https://github.com/kieranrcampbell/phenopath

Examples

## Not run: 
ref_data <- simmethods::data
## estimation
estimate_result <- simmethods::phenopath_estimation(
  ref_data = ref_data,
  verbose = TRUE,
  seed = 111
)

## End(Not run)

duohongrui/simmethods documentation built on June 17, 2024, 10:49 a.m.