Filter gene sets by size and presence of each gene in the reference gene expression data set

Source: R/filterGeneSets.R

The `filterGeneSets` function filters gene sets by their sizes, and filters out genes not in the candidate list.

filterGeneSets(geneSetList, candidateGenes, min.size = 25, max.size = 500)

Arguments

geneSetList

A gene set collection stored in a list.
candidateGenes

A character vector of all genes to be considered.
min.size

Minimum number of genes to keep a gene set. Cannot be smaller than 2.
max.size

Maximum number of genes to keep a gene set.

Value

Filtered list of gene sets. This output can be used to construct gene set edge groups with the `getGeneSetEdgeGroup` function.

Examples

## NOT RUN
# filterGeneSets(gscv7.0$kegg, colnames(ahba), min.size = 5, max.size = Inf)