MFA simulation

Simulate a bifurcating pseudotime path using the mfa method.

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.

Value

SingleCellExperiment containing simulated counts

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.

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

if (requireNamespace("mfa", quietly = TRUE)) {
    sim <- mfaSimulate()
}
#> Simulating counts...
#> Creating final dataset...