RIdeogram

RIdeogram generates idiograms and maps genome-wide continuous and discrete data using Scalable Vector Graphics (SVG) to visualize genomic features such as GC content, gene density, repeat density, DNA methylation distribution, and genomic synteny for comparative and feature-level analyses.

Key Features:

• R package: RIdeogram is implemented as an R package for integration into R-based genomic workflows.
• Species flexibility: Creates idiograms for any species with chromosome-level assembly data.
• Data mapping: Maps continuous and discrete genome-wide data onto idiograms to represent chromosomal distributions.
• Visualization output: Produces Scalable Vector Graphics (SVG) idiograms with visualization options including heat maps and track labels.
• Supported features: Visualizes GC content, gene density, repeat density, DNA methylation distribution, and genomic synteny.

Scientific Applications:

• Comparative Genomics: Visualizes genomic synteny and comparative metrics to study evolutionary relationships and functional conservation.
• Epigenetic Studies: Maps DNA methylation distribution across chromosomes to support epigenetic analyses.
• Genomic Feature Analysis: Displays gene density, repeat elements, and GC content to analyze genome structure and composition.

Methodology:

Generates SVG idiograms from chromosome-level assemblies and maps continuous and discrete genome-wide data (e.g., GC content, gene density, repeat density, DNA methylation, synteny) using heat maps and track labels.