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# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
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cff-version: 1.2.0
message: 'To cite package "GOfuncR" in publications use:'
type: software
license: GPL-2.0-or-later
title: 'GOfuncR: Gene ontology enrichment using FUNC'
version: 1.25.0
doi: 10.32614/CRAN.package.GOfuncR
abstract: 'GOfuncR performs a gene ontology enrichment analysis based on the ontology
  enrichment software FUNC. GO-annotations are obtained from OrganismDb or OrgDb packages
  (''Homo.sapiens'' by default); the GO-graph is included in the package and updated
  regularly (01-May-2021). GOfuncR provides the standard candidate vs. background
  enrichment analysis using the hypergeometric test, as well as three additional tests:
  (i) the Wilcoxon rank-sum test that is used when genes are ranked, (ii) a binomial
  test that is used when genes are associated with two counts and (iii) a Chi-square
  or Fisher''s exact test that is used in cases when genes are associated with four
  counts. To correct for multiple testing and interdependency of the tests, family-wise
  error rates are computed based on random permutations of the gene-associated variables.
  GOfuncR also provides tools for exploring the ontology graph and the annotations,
  and options to take gene-length or spatial clustering of genes into account. It
  is also possible to provide custom gene coordinates, annotations and ontologies.'
authors:
- family-names: Grote
  given-names: Steffi
  email: grote.steffi@gmail.com
repository: https://bioc.r-universe.dev
commit: 89fed0888cc50a89f3f3a51ff88fd32f6fc67d95
date-released: '2024-02-03'
contact:
- family-names: Grote
  given-names: Steffi
  email: grote.steffi@gmail.com