run_the_tests: run_the_tests()

In PNNL-Comp-Mass-Spec/Rodin: Lipid Mini-on

run_the_tests()

Description

Runs the specified enrichment test(s) and returns a table of results

Usage

run_the_tests(Query.miner, Universe.miner, test.type, general.select, subset.by,
  subset.select, enrich, pval, adjpval)

Arguments

Query.miner	list output from lipid.miner() function run on the Query dataset
Universe.miner	list output from lipid.miner() function run on the Universe dataset
test.type	character string specifying the type of enrichment test. Valid values are: "Fisher", "Binom", "Hyper", or "EASE".
general.select	vector of logical values of length ?, where the vector specifies ? in the following order ?
subset.by	character string specifying one of "category", "mainclass", or "subclass", which denote the ?
subset.select	vector of logical values of length ?, where the vector specifies ? in the following order ?
enrich	logical value specifying whether to ?
pval	numeric value specifying the pvalue (between 0 and 1) to use as a cutoff for the enrichment
adjpval	numeric value specifying a BH adjusted pvalue (between 0 and 1) to use as a cutoff for the enrichment

Author(s)

Geremy Clair, Kelly Stratton

PNNL-Comp-Mass-Spec/Rodin documentation built on Jan. 28, 2024, 2:12 a.m.