Skills

A skill is a package of structured files that teaches an AI coding agent how to work with a specific tool or framework. The skill below was generated by Great Docs from this project’s documentation. Install it in your agent and it will be able to run commands, edit configuration, write content, and troubleshoot problems without step-by-step guidance from you.

Any agent — install with npx:

npx skills add https://hocheggerlab.github.io/omero-screen/cellclass/

Codex / OpenCode

Tell the agent:
Fetch the skill file at https://hocheggerlab.github.io/omero-screen/cellclass/skill.md and follow the instructions.

Manual — download the skill file:

curl -O https://hocheggerlab.github.io/omero-screen/cellclass/skill.md

Or browse the SKILL.md file.

SKILL.md

---
name: cellclass
description: >
  Cell classification using machine learning models. Use when writing Python code that uses the cellclass package.
compatibility: Requires Python >=3.12,<3.15.
---

# CellClass

Cell classification using machine learning models

## Installation

```bash
pip install cellclass
```

## API overview

### Datasets

Loading labelled crops for training.

- `ROIDataset`: Dataset of image regions (ROIs) and integer class labels
- `prepare_dataset`: Prepare an .npz dataset from a directory of .npy cell image files

### Models

Model construction and evaluation.

- `Model`: Supported classification model architectures
- `create_model`: Create a classification model for cell image data
- `test_epoch`: Run one evaluation pass and return true and predicted labels

## Resources

- [Full documentation](https://hocheggerlab.github.io/omero-screen/cellclass/)
- [llms.txt](llms.txt) — Indexed API reference for LLMs
- [llms-full.txt](llms-full.txt) — Comprehensive documentation for LLMs