queryAnnotateModules-methods: Query Annotate FI Network Module Gene Set

In funnell/reactomefi: Reactome FI network analysis tools

Description

Query the RESTful API to annotate a gene set from a FI network module with enriched pathways, or GO terms

Usage

queryAnnotateModules(object, module.nodes, type = c("Pathway", "BP", "CC",
  "MF"))

## S4 method for signature 'ReactomeFIService,data.frame,character'
queryAnnotateModules(object,
  module.nodes, type = c("Pathway", "BP", "CC", "MF"))

Arguments

object	ReactomeFIService object.
module.nodes	Data frame with network nodes (genes) and their module.
type	Gene annotation enrichment type (Pathway, BP, CC, MF).

Value

data.frame Each row represents an annotation of the provided type and includes related information such as the p-value and FDR generated from enrichment analysis and the module the annotation belongs to.

funnell/reactomefi documentation built on May 16, 2019, 4:05 p.m.