addAncestors: Add GO IDs of the ancestors for a given vector of GO ids

In jianhong/ChIPpeakAnno: Batch annotation of the peaks identified from either ChIP-seq, ChIP-chip experiments, or any experiments that result in large number of genomic interval data

Add GO IDs of the ancestors for a given vector of GO ids

Description

Add GO IDs of the ancestors for a given vector of GO IDs leveraging GO.db

Usage

addAncestors(go.ids, ontology = c("bp", "cc", "mf"))

Arguments

go.ids	A matrix with 4 columns: first column is GO IDs and 4th column is entrez IDs.
ontology	bp for biological process, cc for cellular component and mf for molecular function.

Value

A vector of GO IDs containing the input GO IDs with the GO IDs of their ancestors added.

Author(s)

Lihua Julie Zhu

Examples

go.ids = cbind(c("GO:0008150", "GO:0005576", "GO:0003674"),
               c("ND", "IDA", "ND"), 
               c("BP", "BP", "BP"), 
               c("1", "1", "1"))
library(GO.db)
addAncestors(go.ids, ontology="bp")

jianhong/ChIPpeakAnno documentation built on Nov. 1, 2024, 8:55 a.m.