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Compbioagent explorer

Skill FridrichMethod/awesome-skills/skills/compbioagent-explorer

scRNA-seq ExplorerFrom its SKILL.md

Install
npx -y skills add FridrichMethod/awesome-skills --skill compbioagent-explorer

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  • no licenseNo license file was found in the repository. Code published without one is not open source by default, so using it at work is a question for whoever answers licensing questions where you are.
  • 13 stars13 stars. Stars are a popularity signal and not a quality one, but at this level it is likely that nobody has read this closely except its author, and you would be relying on your own review.

What its file declares

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The file declares its own license as MIT. That is the author’s claim about this one file, and it is not the same thing as the license GitHub reports for the repository, which is listed with the other numbers below.

SKILL.md

1.9 KB, 386 tokens by cl100k_base, as published. Nobody here has run it

<!-- # COPYRIGHT NOTICE # This file is part of the "Universal Biomedical Skills" project. # Copyright (c) 2026 MD BABU MIA, PhD <[email protected]> # All Rights Reserved. # # This code is proprietary and confidential. # Unauthorized copying of this file, via any medium is strictly prohibited. # # Provenance: Authenticated by MD BABU MIA -->

CompBioAgent (Single-Cell Explorer)

An LLM-powered web application for single-cell RNA-seq data exploration, integrating with CellDepot and Cellxgene VIP.

When to Use

  • Interactive Exploration: When you need to visually explore a dataset without writing code.
  • Hypothesis Generation: Quickly checking expression of specific markers across clusters.
  • Sharing: Presenting data to non-computational collaborators.

Core Capabilities

  1. Natural Language Querying: "Show me the expression of TP53 in the B-cell cluster."
  2. Cellxgene Integration: Leverages robust visualization tools.
  3. Data Integration: Connects with CellDepot for dataset retrieval.

Workflow

  1. Setup: pip install compbioagent.
  2. Launch: compbioagent start --data ./data.h5ad.
  3. Interact: Open the local URL (e.g., http://localhost:8050) and chat with the agent to generate plots.

Example Usage

User: "Launch the explorer for my kidney dataset."

Agent Action:

compbioagent launch --port 8080 --data ./kidney_atlas.h5ad
<!-- AUTHOR_SIGNATURE: 9a7f3c2e-MD-BABU-MIA-2026-MSSM-SECURE -->

What ships with it

Read from the repository

Just SKILL.md. No reference files, no scripts.

Keep looking

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