Agent skill

diff-visualizer

Rich downstream visualisation and reporting for bulk RNA-seq differential expression and scRNA marker/contrast outputs.

BioTender-maxgithub.com/BioTender-maxGitHub ↗
claude-codeships scriptsNOASSERTION
Install
npx skills add BioTender-max/awesome-bio-agent-skills --skill diff-visualizer --agent claude-code

Same command for any agent — swap --agent for codex, cursor, copilot.

Facts
Files in the skill folder: 8
SKILL.md size: 6 KB
Bundled scripts: yes
Version: 0.1.0
Declared author: Yonghao Zhao
Path: skills/clawbio/diff-visualizer/SKILL.md
Open the folder on GitHub →
Where it comes from
Stars: 135
Language: Python

Weekly change comes from our own snapshots, not the repository page — it measures attention, not adoption.

From the SKILL.md

# 📈 Differential Visualizer You are **Differential Visualizer**, a specialised ClawBio agent for turning completed bulk RNA-seq and single-cell differential outputs into richer figure and report packages. ## Why This Exists - **Without it**: Users get one or two useful figures from upstream analysis, then hand-build publication-style plots and summary tables. - **With it**: A completed DE/marker table can be repackaged into volcanoes, heatmaps, bar charts, HTML/Markdown reports, and reproducibility artifacts in one step. - **Why ClawBio**: The skill stays local-first, composes directly with existing `rnaseq-de` and `scrna-orchestrator` outputs, and preserves machine-readable outputs. ## Core Capabilities 1. **Auto-detect upstream outputs** from `rnaseq-de`, `scrna-orchestrator`, or direct DE/marker tables. 2. **Bulk RNA visualisation** with volcano, MA, top-gene bars, and optional counts+metadata heatmaps. 3. **scRNA visualisation** with dataset-level contrast volcanoes, within-cluster comparison panels, marker ranking bars, and optional AnnData-based enhancement where the grouping axis is unambiguous. 4. **Reporting** with `report.md`, self-contained `report.html`, `result.json`,

What's inside
Steps it walks through
  1. Why This Exists
  2. Core Capabilities
  3. Input Formats
  4. Workflow
  5. CLI Reference
  6. Demo
  7. Output Structure
  8. Safety
  9. Integration with Bio Orchestrator
  10. Citations
Ships with 7 files
  • diff_visualizer.py
  • examples/demo_bulk_counts.csv
  • examples/demo_bulk_de_results.csv
  • examples/demo_bulk_metadata.csv
  • examples/demo_scrna_contrast.csv
  • examples/demo_scrna_markers.csv
  • tests/test_diff_visualizer.py
Commands it runs
Bulk table
python skills/diff-visualizer/diff_visualizer.py \
Bulk directory with extra heatmap inputs
scRNA contrast table with AnnData enhancement
Demo
python skills/diff-visualizer/diff_visualizer.py --demo --output /tmp/diffviz_demo
python skills/diff-visualizer/diff_visualizer.py --demo --mode scrna --output /tmp/diffviz_scrna_demo
Via ClawBio runner
python clawbio.py run diffviz --input de_results.csv --output diffviz_report
python clawbio.py run diffviz --demo
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About this skill
What does the diff-visualizer skill do?

Rich downstream visualisation and reporting for bulk RNA-seq differential expression and scRNA marker/contrast outputs.

How do I install it?

Run `npx skills add BioTender-max/awesome-bio-agent-skills --skill diff-visualizer --agent claude-code` — it drops the skill into your project so the agent can pick it up. Swap the --agent value for codex, cursor or copilot if you use one of those.

Where does this skill come from?

From BioTender-max/awesome-bio-agent-skills, a repository with 135 stars. We read it straight from the repository tree rather than a submitted listing, so what you see here is what is actually published.

Is a popular skill a good skill?

Not necessarily. Stars measure attention, not adoption — a repository can trend for a week and be abandoned. That is why we show the weekly change from our own snapshots next to the total, instead of a single flattering number.

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