escoSimTrueCounts: Simulate true counts

Description Usage Arguments Value

View source: R/esco-simulate.R

Description

Simulate a true counts matrix. Counts are simulated from a poisson distribution where each gene in each cell has it's own mean based on the group (or path position), expected library size and BCV. Additional gene-gene interaction can be introduced via a copula model with correlation matrix input by design or randomly generated from a real purifed gene expression data set from NeuroExpresso https://www.eurekalert.org/pub_releases/2017-11/sfn-nwa111417.php.

Usage

1
escoSimTrueCounts(sim, type, verbose, numCores = 2)

Arguments

sim

SingleCellExperiment to add true counts to.

type

The type of cell structure: 'single', 'group', 'tree', or 'traj'.

verbose

whether to print the process or not

numCores

the number of cores for parallelization during simulation, if set as NULL, then all the cores are used.

Value

sim SingleCellExperiment with simulated true counts.


JINJINT/ESCO documentation built on May 13, 2021, 7:25 p.m.