generateData: A function generating simulation data

In JungsooGIM/LPEseq: LPEseq: local-pooled-error test for RNA-seq data with a small number of replicates

Description

A function generating simulation data

Usage

generateData(n.gene = 20000, n.cond = 2, n.deg = 0, eff = 1000,
  n.rep = 3, disp = 0.25)

Arguments

n.gene	the number of genes (default 20000)
n.cond	the number of conditions (default 2)
n.deg	the number of differentially expressed genes (DEGs) (default 0)
eff	count difference of DEGs between conditions (default 1000)
n.rep	the number of replicates in each condition (default 3)
disp	dispersion parameter for NB distribution (default 0.25)

Details

See the reference paper

Value

matrix

simulated datasets

Author(s)

Jungsoo Gim

References

J. Gim and T. Park, PLoS ONE under revision (http://bibs.snu.ac.kr/software/LPEseq)

Examples

## Generating a replicated simulation dataset
simData <- generateData(n.deg=1000)

## Generating a non-replicated simulation dataset
simData.norep <- generateData(n.deg=1000, n.rep=1)

JungsooGIM/LPEseq documentation built on May 16, 2019, 10:04 a.m.