sim_fisher: Apply 'fisher_enrichment' to simulated data

In jdreyf/ezlimma: Streamlines and extends limma package

Apply fisher_enrichment to simulated data

Description

Apply fisher_enrichment to simulated data.

Usage

sim_fisher(
  G,
  feat.tab,
  grp,
  effect.v = c(0, 0.2),
  alpha = 0.2,
  nsim = 99,
  test.ft = TRUE,
  seed = 1,
  verbose = FALSE
)

Arguments

G	Gene set list as returned from read_gmt.
feat.tab	Table of feature (e.g. gene) statistics that the Excel table can link to.
grp	Vector of sample groups. These must be valid variable names in R and the same length as ncol(object).
effect.v	Numeric vector of log fold-changes or percent of phentotypes to add.
alpha	Alpha level.
nsim	Number of simulations.
test.ft	Compare to fisher.test.
seed	Random seed for reproducibility.
verbose	Logical; should the number of simulations be printed every 100 simulations?

jdreyf/ezlimma documentation built on April 28, 2024, 1:10 p.m.