This package provides pathway enrichment techniques for miRNA expression data. Specifically, the set of methods handles the many-to-many relationship between miRNAs and the multiple genes they are predicted to target (and thus affect.) It also handles the gene-to-pathway relationships separately. Both steps are designed to preserve the additive effects of miRNAs on genes, many miRNAs affecting one gene, one miRNA affecting multiple genes, or many miRNAs affecting many genes.
|Author||James M. Ward <email@example.com> with contributions from Yunling Shi, Cindy Richards, John P. Cogswell|
|Date of publication||None|
|Maintainer||James M. Ward <firstname.lastname@example.org>|
checkColumns: Check data.frame for Required Columns
convertFoldChange: Converts Fold Change to Consistent Format
filtermirnapath: Filter miRNApath data
loadmirnapath: Load miRNApath Data
loadmirnapathways: Load gene to pathway associations for miRNApath
loadmirnatogene: Load miRNA to gene associations for miRNApath
mirnaobj: mirnaobj, an S4 object of class "mirnapath"
mirnapath-class: S4 class mirnapath and its "show" method
miRNApath-package: miRNApath: Pathway Enrichment for miRNA Expression Data
mirnaTable: Create miRNA Enrichment Summary Table as data.frame
runEnrichment: Perform gene set enrichment analysis on a miRNApath object