makeSimSwishData: Make simulated data for swish for examples/testing

In fishpond: Fishpond: differential transcript and gene expression with inferential replicates

Description

Makes a small swish dataset for examples and testing. The first six genes have some differential expression evidence in the counts, with varying degree of inferential variance across inferential replicates (1-2: minor, 3-4: some, 5-6: substantial). The 7th and 8th genes have all zeros to demonstrate labelKeep.

Usage

makeSimSwishData(
  m = 1000,
  n = 10,
  numReps = 20,
  null = FALSE,
  meanVariance = FALSE
)

Arguments

m	number of genes
n	number of samples
numReps	how many inferential replicates to generate
null	logical, whether to make an all null dataset
meanVariance	logical, whether to output only mean and variance of inferential replicates

Value

a SummarizedExperiment

Examples

library(SummarizedExperiment)
y <- makeSimSwishData()
assayNames(y)

fishpond documentation built on Nov. 8, 2020, 7:54 p.m.