annotFilter |
Checks and filters an annotation list. |
annotList2mat |
Convert an annotation list into an annotation matrix. |
annotMat2list |
Convert an annotation matrix into an annotation list. |
getGOnames |
Get Gene Ontology names |
getKEGGnames |
Get KEGG names |
getOntology |
Get GO term Ontology |
goLeaves |
Keep just leaf nodes from the Gene Ontology DAG. |
indexTransform |
Transform ranking index distribution. |
mdGsa |
Multi-Dimensional Gene Set Analysis. |
mdPat |
Multi-Dimensional Gene Set Analysis Pattern Classification. |
multidimensionalGsa |
Multi-Dimensional Gene Set Analysis. |
multivariateGsa |
Multi-Dimensional Gene Set Analysis. |
plotMdGsa |
Plot Multi-Dimensional Gene Set |
propagateGO |
Propagate Gene Ontology annotation. |
pval2index |
Transform p-values in into a ranking index. |
revList |
Revert an annotation list. |
splitOntologies |
Split an annotation list of GO terms by ontologies. |
transferIndex |
Transfer a ranking index from regulatory elements, such as miRNAs, to genes. |
univariateGsa |
Uni-Variate Gene Set Analysis. |
uvGsa |
Uni-Variate Gene Set Analysis. |
uvPat |
Uni-Variate Gene Set Analysis Pattern Classification. |
uvSignif |
Filter significant terms in the univariate gene set analysis. |