Description Usage Arguments Details Value References Examples
View source: R/zinb-simulate.R
Simulate counts using the ZINB-WaVE method.
1 | zinbSimulate(params = newZINBParams(), sparsify = TRUE, verbose = TRUE, ...)
|
params |
ZINBParams object containing simulation parameters. |
sparsify |
logical. Whether to automatically convert assays to sparse matrices if there will be a size reduction. |
verbose |
logical. Whether to print progress messages |
... |
any additional parameter settings to override what is provided in
|
This function is just a wrapper around zinbSim
that
takes a ZINBParams
, runs the simulation then converts the
output to a SingleCellExperiment
object.
See zinbSim
and the ZINB-WaVE paper for
more details about how the simulation works.
SingleCellExperiment containing simulated counts
Campbell K, Yau C. Uncovering genomic trajectories with heterogeneous genetic and environmental backgrounds across single-cells and populations. bioRxiv (2017).
Risso D, Perraudeau F, Gribkova S, Dudoit S, Vert J-P. ZINB-WaVE: A general and flexible method for signal extraction from single-cell RNA-seq data bioRxiv (2017).
Paper: 10.1101/125112
Code: https://github.com/drisso/zinbwave
1 2 3 | if (requireNamespace("zinbwave", quietly = TRUE)) {
sim <- zinbSimulate()
}
|
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.