Data & ReproScientific VisualizationFreedomIntelligence/OpenClaw-Medical-SkillsData & Reproduction

bio-copy-number-cnv-visualization

Maintainer FreedomIntelligence · Last updated April 1, 2026

Visualize copy number profiles, segments, and compare across samples. Create publication-quality plots of CNV data from CNVkit, GATK, or other callers. Use when creating genome-wide CNV plots, sample heatmaps, or chromosome-level visualizations.

OpenClawNanoClawAnalysisWritingbio-copy-number-cnv-visualization🧬 bioinformatics (gptomics bio-* suite)bioinformatics — clinical databases & variant analysisvisualize

Original source

FreedomIntelligence/OpenClaw-Medical-Skills

https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-copy-number-cnv-visualization

Maintainer: FreedomIntelligence
License: MIT
Last updated: April 1, 2026

Skill Snapshot

Key Details From SKILL.md

2 min

Key Notes

CLI: cnvkit.py scatter, cnvkit.py diagram, cnvkit.py heatmap.
Python: matplotlib for custom CNV plots.
R: ggplot2 for publication figures.
Plot my copy number profile" → Create genome-wide scatter plots, segmentation views, and multi-sample heatmaps from CNV caller output. CLI: cnvkit.py scatter, cnvkit.py diagram, cnvkit.py heatmap Python: matplotlib for custom CNV plots R: ggplot2 for publication figures.
cnvkit.py scatter sample.cnr -s sample.cns -o scatter.png.

Source Doc

Excerpt From SKILL.md

CNVkit Built-in Plots

Goal: Generate standard CNV visualizations directly from CNVkit output files.

Approach: Use CNVkit scatter, diagram, and heatmap commands for quick visual inspection.


## Scatter for specific chromosome

cnvkit.py scatter sample.cnr -s sample.cns -c chr17 -o chr17_scatter.png

## Ideogram diagram

cnvkit.py diagram sample.cnr -s sample.cns -o diagram.pdf