CGR Viewer

Aimed at researchers and educators, CGR Viewer visualizes Chaos Game Representation data from nucleotide sequences for quick, informative analyses.

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About This Tool

CGR Viewer processes nucleotide sequences to generate Chaos Game Representation plots. It accepts a FASTA string or a data URL and outputs a scalable visualization suitable for exploratory analysis and publication-ready figures.
Conceptually, CGR encodes sequence composition by iteratively mapping k-mers to points within a unit square. The density of point clusters reflects motif prevalence and sequence structure, revealing repeats, biases, and comparative patterns across samples.
Users benefit from a deterministic pipeline, support for multiple samples, and straightforward export options. Advanced users can tune k, color schemes, and normalization to emphasize different features, or integrate with pipelines via a stable API-like render URL.
Core features include multi-sample overlays on a common scale, adjustable k (1–6), SVG and PNG exports, and deterministic rendering suitable for reproducible analyses and teaching. Typical use cases include comparing genomes, validating sequence diversity, and generating visuals for reports.

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How to Use

Provide inputs: supply input_source and k;
Configure options: set color_scheme, enable overlay_sources if needed;
Run rendering: generate render_svg/render_url;
Review outputs: inspect details;
Export/share: download SVG/PNG or copy render URL.

Frequently Asked Questions

Find Quick Answers

What input formats are supported?

The tool accepts FASTA strings or data URLs containing nucleotide sequences. Inputs must use A, C, G, T (upper case) for standard CGR mapping. Ambiguities may be supported if configured; otherwise invalid characters will trigger validation errors.

Can I overlay multiple samples?

Yes. Overlay supports multiple input sources on a common k and scale. Densities are color-coded per source and normalized to a shared maximum to enable direct visual comparison of sequence patterns.

What export formats are available?

Exports include SVG by default and PNG with selectable resolution. The SVG is vector-based for publication quality, and PNGs support transparency and DPI settings where applicable.

Is my data private?

Uploads are processed on the backend with ephemeral storage by default. No long-term persistence unless the user explicitly saves results. Data handling follows standard privacy practices for transient processing.

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