---
title: "scGPT - Air Market"
description: "You have single-cell data and questions about it: what type is this cell, what happens under a perturbation, how do these batches line up. This runs single-cell foundation model workflows to answer t…"
canonical: "https://airmarket.ai/app/scgpt"
---

[Air Market](/) / [Research](/category/research) / scGPT

Skill by [Companion](/@companion-inc)

# scGPT

Put a foundation model to work on your single-cell data

## What this does

You have single-cell data and questions about it: what type is this cell, what happens under a perturbation, how do these batches line up. This runs single-cell foundation model workflows to answer that kind of question. Reach for it when your analysis needs embeddings, annotation, or gene-program work.

### Top 3 things it does for you

- Get embeddings for single cells
- Annotate cell types
- Predict what a perturbation does

## Information

**scGPT at a glance**

|  |  |
| --- | --- |
| Kind | Skill |
| Publisher | [Companion](/@companion-inc) |
| Category | [Research](/category/research) |
| Works with | Agent Skills - an open standard supported by 40+ agents |
| Size | 858 bytes |
| Licence | MIT |
| Repository | [companion-inc/feynman](https://github.com/companion-inc/feynman/tree/54d08a33dfe17abca118c093ad7f2c6b1a41421a/skills/scgpt) |
| GitHub stars | 8,551 (as of Nov 2026) |
| Installs | 36, counted by skills.sh (Nov 2026) |

## Security report

**Verified.** AIR scanned this exact version of scGPT and flagged nothing. AIR's verdict: **safe**.

**What scGPT's check was run against**

|  |  |
| --- | --- |
| Commit | 54d08a33dfe17abca118c093ad7f2c6b1a41421a |
| Content hash | 1cb3fd637c595cfdc5b16497959e05e183c78dfae3fb11872836af1de728b174 |
| Files read | [Browse the files at this exact commit](https://github.com/companion-inc/feynman/blob/54d08a33dfe17abca118c093ad7f2c6b1a41421a/skills/scgpt/SKILL.md) |

A scan is named by the exact content it read, not by a version number. A different version is a different artifact, and nothing here applies to a version AIR has not scanned.

[Read the full security report for scGPT](/security/scgpt)

## About scGPT

This runs scGPT-style single-cell foundation model workflows.

It covers single-cell embeddings, perturbation prediction, cell annotation, batch transfer, and gene-program analysis.

## What's inside

- SKILL.md - instructions

## Questions

### Is scGPT safe to install?

AIR scanned this exact version of scGPT and flagged nothing. AIR's verdict: safe. The verdict is named by the content that was read, at commit 54d08a33dfe1, so it cannot drift onto a version nobody scanned. The full report is at https://airmarket.ai/security/scgpt.

### How do I install scGPT?

Open https://airmarket.ai/app/scgpt on Air Market and use the install action: Air Market hands Claude a prompt naming this exact skill, and Claude sets it up. Source, pinned to the exact commit this listing describes: https://github.com/companion-inc/feynman/tree/54d08a33dfe17abca118c093ad7f2c6b1a41421a/skills/scgpt. Install from that link, not the branch.

## Related on Air Market

- [More Research listings](/category/research)
- [Everything by Companion](/@companion-inc)

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Canonical URL: <https://airmarket.ai/app/scgpt>