compareEnrichBin

Bin-based enrichment for ordered genes in a specific pattern

Usage

compareEnrichBin(
  gene.group,
  pattern,
  bin.width = 0.2,
  stride = 0.1,
  species = "human",
  ont = "BP",
  universe = FALSE,
  ...
)

Arguments

gene.group

A data frame indicating genes in each pattern

pattern

The expression pattern for enrichment analysis

bin.width

The width of each bin

stride

Stride of each step

species

Select from human or mouse

ont

One of "BP", "MF", and "CC" subontologies, or "ALL" for all three

universe

Pass to the universe paramenter of enrichGO

...

Pass to the function enrichGO

Value

A compareClusterResult object summarizing enrichment results across bins

Details

This function partitions genes within a temporal expression pattern into bins along pseudotime and performs GO enrichment on each bin. The output contains enrichment results for all bins

Author

Zhicheng Ji, Changxin Wan, Beijie Ji