simulateDGE: Simulate Single Cell RNAseq count data

In marchinilab/sinsynthr: dropsim: Single Cell RNAseq simulator for droplet technology

Description

simulateDGE simulate digital gene expression matrix containing count data from given parameters

Usage

simulateDGE(parameters, sparse = TRUE, cell_prefix = "cell", dge = TRUE,
  seed = NULL)

Arguments

parameters	object of class dropsim containing parameters
sparse	logical; if true the counts are returned as a sparse matrix
cell_prefix	character; the default group name for cells
dge	logical; if false counts a returned as a matrix cells by genes rather than genes by cells (If sparse=FALSE, setting dge=FALSE can save time on larger datasets.)
seed	integer; seed for random number generation, set this for repoduciable simulations.

Value

A list containing a matrix of read counts, true underlying expression values, fold change in expression for the groups simulated, and the seed used for random number generation.

Examples

# new_parameters <- dropsim_parameters()
# dge <- simulate(new_parameters)

marchinilab/sinsynthr documentation built on May 29, 2019, 3:44 a.m.