https://github.com/outerbounds/metaflow-geneformer
https://github.com/outerbounds/metaflow-geneformer
Last synced: 8 months ago
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- Host: GitHub
- URL: https://github.com/outerbounds/metaflow-geneformer
- Owner: outerbounds
- Created: 2024-04-10T20:45:27.000Z (about 2 years ago)
- Default Branch: main
- Last Pushed: 2024-04-12T18:08:30.000Z (about 2 years ago)
- Last Synced: 2025-01-06T08:17:44.035Z (over 1 year ago)
- Language: Python
- Size: 271 KB
- Stars: 3
- Watchers: 5
- Forks: 0
- Open Issues: 0
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Metadata Files:
- Readme: README.md
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README
## Read this blog post for context: [Build Reproducible and Scalable Computational Biology Systems](outerbounds.com/blog/reproducible-scalable-computational-biology-systems)
## Setup
### Metaflow
You can either deploy Metaflow following the [documentation](https://outerbounds.com/engineering/welcome/), or [use Outerbounds](https://outerbounds.com/get-started/) for a manged version with a 30-day free trial.
You can find detailed instructions for setting up dependencies for each task in the links in the following section.
## Tasks
**[Cell classification](./cell-classification/)**: Fine-tune the pretrained Geneformer on a custom dataset (or the example, as demonstrated in this repository).