Table 1 Comparing the functionalities of mulea to other functional enrichment R packages and web servers
Name | Type | Nr. of species | Nr. of ontology types | Can supply custom ontology | Empirical false discovery rate |
|---|---|---|---|---|---|
mulea | R package | 27 | 22 | ✓ | ✓ |
clusterProfiler [8] | R package | Uses various databases | ✓ | ✗ | |
web server | 2 | 227 | ✗ | ✗ | |
fenr [35] | R package | As in the GO database | 5 | ✗ | ✗ |
fgsea [17] | R package | Uses the msigdbr package [5] | ✗ | ✗ | |
gprofiler2 [7] | R package | Uses the g:profiler database | ✗ | ✗ | |
GOfuncR [36] | R package | As in the GO database | 1 | ✗ | ✗ |
GOstats [37] | R package | 35 | 2 | ✗ | ✗ |
Metascape [38] | web server | 10 | 18 | ✗ | ✗ |
OpenXGR [39] | web server | 1 | 24 | ✓ | ✗ |
topGO [40] | R package | Undetermined | 1 | ✗ | ✗ |
WebGestalt and WebGestaltR [41] | R package & web server | 12 | 6 | ✗ | ✗ |