From: GOToolBox: functional analysis of gene datasets based on Gene Ontology
Program | References | Statistics | Multiple testing correction | Output | Ontology options |
---|---|---|---|---|---|
eGOn | [18] | Fisher exact test | - | TAB/RANK/TREE | ALL/EVID |
CLENCH | [14] | Hypergeometric Binomial Chi Square | - | TAB/RANK | ALL/SLIM |
FatiGO | [19] | Fisher exact test | Westfall/Benjamini/Yekutieli | TAB/RANK/TREE | LEVEL |
FuncAssociate | [20] | Fisher exact test | P-value adjustment | TAB/RANK | ALL |
FuncSpec | [21] | Hypergeometric | Bonferroni | TAB/RANK | ALL |
GeneMerge | [22] | Hypergeometric | Bonferroni | TAB/RANK | ALL |
GFINDer | [13] | Hypergeometric Fisher exact test Binomial | - | TAB/RANK | ALL |
GoMiner | [15] | Fisher exact test | - | TAB/DAG/TREE | ALL |
Gostat | [23] | Fisher exact test | Holm/Benjamini/Yekutieli | TAB/RANK | LEVEL |
GO Term-Finder (CPAN) | [17] | Hypergeometric | Bonferroni/Benjamini | TAB/RANK/DAG | ALL |
GO Term-Finder (SGD) | [17] | Binomial | - | TAB/RANK/DAG | ALL |
GOTM | [16] | Hypergeometric | - | TAB/TREE/DAG | ALL |
GOToolBox | This paper | Hypergeometric Fisher exact test Binomial | Bonferroni | TAB/RANK | ALL/SLIM/ LEVEL/EVID |