Function reference • pinnacle

All functions

getJaccardMatrix(<GeneSetCollection>) getJaccardMatrix(<GeneSetCollection>): Get pairwise Jaccard similarity between genesets

getJaccardMatrix(<sparseMatrix>) getJaccardMatrix(<sparseMatrix>): Get pairwise Jaccard similarity between genesets

getJaccardMatrix() getJaccardMatrix(): Get pairwise Jaccard similarity between genesets

heatplot(): Plot gene sets in two dimensions

pinnacle(): Evaluate Gene Set Analysis with Pinnacle

plot_mds(): Plot gene sets in two dimensions

recodeToDataTable(): Recode GeneSetCollection to data.table

recodeToList(<GeneSetCollection>): Recode GeneSetCollection to list used by limma

recodeToList(): Recode GeneSetCollection to list used by limma

recodeToSparseMatrix(<GeneSetCollection>): Recode GeneSetCollection to sparseMatrix

recodeToSparseMatrix(): Recode GeneSetCollection to sparseMatrix