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mdgsa (version 1.4.2)

Multi Dimensional Gene Set Analysis.

Description

Functions to preform a Gene Set Analysis in several genomic dimensions. Including methods for miRNAs.

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Version

Version

1.4.2

License

GPL

Issues

1

Pull Requests

0

Stars

3

Forks

2

Maintainer

David Montaner

Last Published

February 15th, 2017

Functions in mdgsa (1.4.2)

annotList2mat

Convert an annotation list into an annotation matrix.
getGOnames

Get Gene Ontology names
splitOntologies

Split an annotation list of GO terms by ontologies.
getKEGGnames

Get KEGG names
goLeaves

Keep just leaf nodes from the Gene Ontology DAG.
mdPat

Multi-Dimensional Gene Set Analysis Pattern Classification.
annotFilter

Checks and filters an annotation list.
annotMat2list

Convert an annotation matrix into an annotation list.
transferIndex

Transfer a ranking index from regulatory elements, such as miRNAs, to genes.
indexTransform

Transform ranking index distribution.
uvPat

Uni-Variate Gene Set Analysis Pattern Classification.
pval2index

Transform p-values in into a ranking index.
mdGsa

Multi-Dimensional Gene Set Analysis.
propagateGO

Propagate Gene Ontology annotation.
revList

Revert an annotation list.
getOntology

Get GO term Ontology
uvSignif

Filter significant terms in the univariate gene set analysis.
plotMdGsa

Plot Multi-Dimensional Gene Set
uvGsa

Uni-Variate Gene Set Analysis.