simulateData: Simulate the Data

In csoneson/compcodeR: RNAseq data simulation, differential expression analysis and performance comparison of differential expression methods

Simulate the Data

Description

Use the Poisson or Negative Binomial model to simulate the data.

Usage

simulateData(
  n.vars,
  S1,
  prob.S1,
  sum.S1,
  truedispersions.S1,
  nfact_length.S1,
  S2,
  prob.S2,
  sum.S2,
  truedispersions.S2,
  nfact_length.S2,
  seq.depths,
  overdispersed
)

Arguments

n.vars	The initial number of genes in the simulated data set. Based on the filtering conditions (filter.threshold.total and filter.threshold.mediancpm), the number of genes in the final data set may be lower than this number.
S1	Indices in condition 1.
prob.S1	Vector of means for condition 1.
sum.S1	Sum of means for condition 1.
truedispersions.S1	Vector of dispersions for condition 1.
nfact_length.S1	Matrix of length factors for condition 1.
S2	Indices in condition 2.
prob.S2	Vector of means for condition 2.
sum.S2	Sum of means for condition 2.
truedispersions.S2	Vector of dispersions for condition 2.
nfact_length.S2	Matrix of length factors for condition 2.
overdispersed	Indices that are overdispersed.

Value

Z a n.var times 2*samples.per.cond matrix with the simulated data.

csoneson/compcodeR documentation built on Oct. 25, 2023, 1:28 a.m.