enrichedGO

Enriched Gene Ontology terms used as example

datasets

The package includes functions to retrieve the sequences
    around the peak, obtain enriched Gene Ontology (GO) terms, find
    the nearest gene, exon, miRNA or custom features such as most
    conserved elements and other transcription factor binding sites
    supplied by users. Starting 2.0.5, new functions have been
    added for finding the peaks with bi-directional promoters with
    summary statistics (peaksNearBDP), for summarizing the
    occurrence of motifs in peaks (summarizePatternInPeaks) and for
    adding other IDs to annotated peaks or enrichedGO (addGeneIDs).
    This package leverages the biomaRt, IRanges, Biostrings,
    BSgenome, GO.db, multtest and stat packages.

Lihua Julie Zhu

ChIPpeakAnno

Batch annotation of the peaks identified from either ChIP-seq,
    ChIP-chip experiments or any experiments resulted in large
    number of chromosome ranges

enrichedGO: Enriched Gene Ontology terms used as example

Description

Usage

Arguments

Examples