test_genesets_goat_fitfunction: Variant of the main GOAT function...

In goat: Gene Set Analysis Using the Gene Set Ordinal Association Test

Variant of the main GOAT function test_genesets_goat_precomputed that does not use previously prepared parameters

Description

In typical use-cases, one applies test_genesets() instead with parameter method="goat" , which in turn will use test_genesets_goat_precomputed (and not this function).

Usage

test_genesets_goat_fitfunction(
  genesets,
  genelist,
  score_type,
  niter = 5e+05,
  verbose = FALSE
)

Arguments

genesets	see test_genesets_goat_precomputed
genelist	see test_genesets_goat_precomputed
score_type	see test_genesets_goat_precomputed
niter	integer number of bootstrap iterations; at least 10000, at most 5000000
verbose	boolean, create debug plots

Details

Optionally, use this function to ignore precomputed/bundled null distribution estimates and perform new permutations and function fitting (e.g. because you want to test the effect of huge niter parameter, but beware of RAM requirements)

Value

see test_genesets_goat_precomputed

goat documentation built on April 3, 2025, 6:05 p.m.