genomic-feature-annotation

What problem does it solve?

Annotate genomic region files (e.g., BED, peaks) with gene-based features using Homer or ChIPseeker, producing annotated regions and feature-distribution visuals to help interpret regulatory landscapes.

Core Features & Use Cases

• Supports input formats such as BED, narrowPeak, and broadPeak.
• Lets you choose between Homer and ChIPseeker workflows for annotation, producing results in standard formats and plots.
• Outputs include annotated region files, summary statistics, and visualization plots; use cases include identifying TF target genes or annotating enhancer regions.
• ChIPseeker mode provides R-based annotation workflows with TxDb and orgDb databases; Homer mode uses annotatePeaks.pl with customizable options.

Quick Start

Provide input genomic region files (BED/narrowPeak/broadPeak) and a genome assembly, then choose Homer or ChIPseeker to run annotations and produce annotated results with visualizations.