kernelEnrichment: Perform gene set enrichment analysis using a kernel-weighted...

In mkumar-rapttx/RAPTR: Custom R functions for RAPT Therapeutics

Description

Perform gene set enrichment analysis using a kernel-weighted GSEA score on a vector of values for a single sample

Usage

kernelEnrichment(
  geneSets,
  expressionVals,
  genes,
  minSetSize = 0,
  randomization_n = 1000,
  parallel = FALSE
)

Arguments

geneSets	a list of gene name vectors
expressionVals	a vector of gene scores such as differential expression values or Z-scores
genes	a vector of gene names in the same order as expressionVals
minSetSize	minimum number of genes that must be in gene set after filtering
randomization_n	number of rounds of randomization for empirical p-value calculation
parallel	run analysis using multicore parallel operations *may break*

Value

tibble with rows for each geneSet

mkumar-rapttx/RAPTR documentation built on July 3, 2021, 10:14 p.m.