mfaEstimate {splatter} | R Documentation |
Estimate simulation parameters for the mfa simulation from a real dataset.
mfaEstimate(counts, params = newMFAParams()) ## S3 method for class 'SingleCellExperiment' mfaEstimate(counts, params = newMFAParams()) ## S3 method for class 'matrix' mfaEstimate(counts, params = newMFAParams())
counts |
either a counts matrix or a SingleCellExperiment object containing count data to estimate parameters from. |
params |
MFAParams object to store estimated values in. |
The nGenes
and nCells
parameters are taken from the size of the
input data. The dropout lambda parameter is estimate using
empirical_lambda
. See MFAParams
for more
details on the parameters.
MFAParams object containing the estimated parameters.
# Load example data if (requireNamespace("mfa", quietly = TRUE)) { library(mfa) synth <- create_synthetic(C = 20, G = 5, zero_negative = TRUE, model_dropout = TRUE) params <- mfaEstimate(synth$X) params }