# jokergoo/ComplexHeatmap

Make Complex Heatmaps

Repository: https://github.com/jokergoo/ComplexHeatmap
Canonical: https://ross.abutalabs.com/products/complexheatmap
Homepage: https://jokergoo.github.io/ComplexHeatmap-reference/book/
Language: R
License: NOASSERTION
License Family: other
Topics: heatmap, complex-heatmaps, clustering
Last push: 2026-04-02T07:54:48+00:00

## Health v2 (maintenance only)
Score: 57/100 (v2, computed 2026-09-02T17:46:02.011165+00:00)
- activity 75, release rhythm 8, longevity 100
- inputs: {"age_days": 4234, "days_push": 153, "days_rel": null, "gap_med": null, "n_releases_24m": 0}
- flags: no_license
- formula: round(0.45*activity + 0.35*rhythm + 0.20*longevity); archived -> min(score, 10)

## Adoption (not part of the score)
Stars 1536, forks 249 (observed 2026-08-28T04:04:59.929690+00:00)

## What it is
An R/Bioconductor package for creating complex heatmaps with flexible arrangement of multiple heatmaps and rich annotation graphics. It is widely used to visualize associations between data sources and reveal patterns in multidimensional genomic data.

## Use cases
- visualize a gene expression matrix as a heatmap with clustering
- plot multiple heatmaps side by side with shared row ordering
- add column and row annotations to a heatmap in R
- make a publication-quality complex heatmap for genomic data
- convert a pheatmap script to a more flexible heatmap package
- create a 3D heatmap in R

## When to choose
- you need highly customizable heatmaps with annotations, legends, and multiple panels in R
- you work with bioinformatics or genomic multidimensional data
- you want Bioconductor integration and an active, well-documented package

## When to avoid
- you only need a quick simple heatmap and prefer a minimal tool like pheatmap
- you are not working in R
- you need interactive dashboards rather than static figures (though see InteractiveComplexHeatmap)

## Facets
- artifact type: library
- maturity: active
- function: data-visualization, charts
- domain: data-visualization, bioinformatics, data-science
- platform: -
- tags: heatmap, clustering, bioconductor, genomics, annotation-graphics, r

## Member repositories
- jokergoo/ComplexHeatmap (main) score 57

## Provenance
- Observed fields: from GitHub, fetched 2026-08-28T04:04:59.929690+00:00.
- Health v2: computed from the inputs above; adoption is never an input.
- Inferred fields (summary, facets, guidance): AI-extracted, prompt v1, taxonomy v1, on 2026-08-30T04:31:05.178758+00:00, confidence not recorded.
  - readme: https://github.com/jokergoo/ComplexHeatmap (fetched 2026-08-28T04:04:59.929690+00:00, sha d43328b573af)
  - homepage: https://jokergoo.github.io/ComplexHeatmap-reference/book/ (fetched 2026-08-29T11:32:48.885229+00:00, sha eb218bc50487)
- Data as of 2026-08-30T08:39:29.467469+00:00.