makeSimDataTcc: Create simulated counts using TCC package

In metaseqR2: An R package for the analysis and result reporting of RNA-Seq data by combining multiple statistical algorithms

Description

This function creates simulated RNA-Seq gene expression datasets using the simulateReadCounts function from the Bioconductor package TCC and it adds simulated annoation elements. For further information please consult the TCC package documentation.

Usage

    makeSimDataTcc(...)

Arguments

...	parameters to the simulateReadCounts function.

Value

A list with the following members: simdata holding the simulated dataset complying with metaseqr2 requirements, and simparam holding the simulation parameters (see TCC documentation). Note that the produced data are based in an Arabidopsis dataset.

Author(s)

Panagiotis Moulos

Examples

if (require(TCC)) {
dd <- makeSimDataTcc(Ngene=1000,PDEG=0.2,
    DEG.assign=c(0.9,0.1),
    DEG.foldchange=c(5,5),replicates=c(3,3))
head(dd$simdata)
}

metaseqR2 documentation built on Nov. 8, 2020, 7:34 p.m.