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MDhewei
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plot-heatmap

Transform numeric matrices into clustered heatmaps with PNG, SVG, or PDF outputs.

64|12|Updated Apr 7, 2026
Search Tags:#python#genomics#data-analysis#clustering#data-visualization#gene-expression#heatmap
One-click install
npx skills add https://github.com/MDhewei/bioinfor-claw --skill plot-heatmap
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: plot-heatmap
Source: https://github.com/MDhewei/bioinfor-claw/tree/main/bioinformatics-plot-generator/plot-heatmap
Command: npx skills add https://github.com/MDhewei/bioinfor-claw --skill plot-heatmap

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill requires numpy, pandas, matplotlib, scipy, and includes scripts (resource) components.

What problem does it solve?

Generating high-quality visual representations of numeric data matrices to reveal patterns, clusters, and relationships for publication-ready figures.

Core Features & Use Cases

  • Hierarchical clustering of rows and columns with multiple distance metrics
  • Flexible scaling options (z-score or min-max) and optional annotation overlays
  • Input/output versatility supports CSV/TSV matrices and PNG/SVG/PDF outputs for genomics, proteomics, and general tabular data

Quick Start

Run the heatmap generator on a numeric matrix file to produce a publication-quality figure.

Frequently Asked Questions about plot-heatmap

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I generate a publication-ready heatmap with hierarchical clustering from a CSV file?▼

To generate a publication-ready heatmap from a CSV file, you can transform numeric matrices into high-quality figures with hierarchical clustering, adjustable z-score scaling, and optional dendrograms for both axes.

Can I add annotation overlays to a gene expression heatmap for genomics data?▼

Yes, you can add optional per-feature metadata overlays to a gene expression heatmap, allowing you to visualize annotations directly alongside clustered genomics and other -omics datasets.

Does this heatmap generator support exporting high-DPI SVG and PDF figures?▼

Yes, the heatmap generator supports exporting high-DPI figures in multiple formats, including PNG, SVG, and PDF, ensuring the output meets publication-quality standards.

What distance metrics are available for clustering rows and columns in a numeric matrix?▼

Multiple distance metrics are available for hierarchical clustering of both rows and columns in a numeric matrix, providing flexibility for analyzing patterns in genomics and general tabular data.

Do I need Python and SciPy to create heatmaps with dendrograms and scaling?▼

Yes, you need Python with dependencies including NumPy, pandas, matplotlib, and SciPy to perform hierarchical clustering, apply scaling options, and render dendrograms for your heatmap.

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