kersplatSimGeneMeans: Simulate Kersplat gene means

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

Simulate Kersplat gene means

Description

Simulate Kersplat gene means

Usage

kersplatSimGeneMeans(params, verbose)

Arguments

params	KersplatParams object containing simulation parameters.
verbose	logical. Whether to print progress messages

Details

Gene means are simulated in one of two ways depending on the value of the mean.method parameter.

If mean.method is "fit" (default) then means are sampled from a Gamma distribution with shape equals mean.shape and rate equals mean.rate. Expression outliers are then added by replacing some values with the median multiplied by a factor from a log-normal distribution. This is the same process used for the Splat simulation.

If mean.method is "density" then means are sampled from the density object in the mean.density parameter using a rejection sampling method. This approach is more flexible but may violate some statistical assumptions.

Value

KersplatParams object with gene means

Oshlack/splatter documentation built on Dec. 10, 2024, 3:48 p.m.