# Multi Dimensional Gene Set Analysis.

## Documentation for package ‘mdgsa’ version 1.8.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

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.