simATACGenerate: Estimate and simulate simATAC simulation parameters

In bowang-lab/simATAC: This package is a single-cell ATAC-seq simulator

Description

Estimate parameters for the simATAC simulation from a real bin by cell input matrix, and use them for simualting final counts.

Usage

simATACGenerate(
  count = NULL,
  object = newsimATACCount(),
  default = TRUE,
  verbose = TRUE,
  ...
)

Arguments

count	Either a sparse bin by cell count matrix, or a SingleCellExperiment object containing the count matrix to estimate parameters from.
object	A simATACCount object to store estimated parameters and the count matrix in it.
default	Logical variable. Sets default parameters if TRUE.
verbose	Logical variable. Prints the simulation progress if TRUE.
...	Any additional parameter settings to override what is provided in simATACCount object.

Value

SingleCellExperiment object containing the estimated counts and parameters.

See Also

simATACEstimate, setParameters simATACSimulate

bowang-lab/simATAC documentation built on Jan. 28, 2021, 1:22 a.m.