mfaSimulate: MFA simulation

In Granoia/splatter-mod: Simple Simulation of Single-cell RNA Sequencing Data

Description

Simulate a bifurcating pseudotime path using the mfa method.

Usage

mfaSimulate(params = newMFAParams(), verbose = TRUE, ...)

Arguments

params	MFAParams object containing simulation parameters.
verbose	Logical. Whether to print progress messages.
...	any additional parameter settings to override what is provided in params.

Details

This function is just a wrapper around create_synthetic that takes a MFAParams, runs the simulation then converts the output from log-expression to counts and returns a SingleCellExperiment object. See create_synthetic and the mfa paper for more details about how the simulation works.

Value

SingleCellExperiment containing simulated counts

References

Campbell KR, Yau C. Probabilistic modeling of bifurcations in single-cell gene expression data using a Bayesian mixture of factor analyzers. Wellcome Open Research (2017).

Paper: 10.12688/wellcomeopenres.11087.1

Code: https://github.com/kieranrcampbell/mfa

Examples

sim <- mfaSimulate()

Granoia/splatter-mod documentation built on May 28, 2019, 12:31 a.m.