Description
Scvi-tools is an agent skill that guides deep-learning analysis of single-cell genomics data using the scvi-tools framework. It is aimed at researchers and bioinformaticians who work with single-cell data and want help choosing the right probabilistic model. Its main use cases are data integration and batch correction, which it handles with the scVI and scANVI models. The skill works in three steps: first identify the right workflow from the model and workflow tables it contains, then read the matching reference file for detailed steps and code, and finally use the helper scripts it ships so common code does not have to be rewritten each time. Separate reference files cover environment and GPU setup and debugging. The skill is part of Anthropic's knowledge-work plugins and is listed as free on skills.sh.…
Highlights
- Data integration and batch correction with scVI and scANVI
- Workflow tables that route to the right model
- Reference files with detailed steps and code
- Helper scripts and troubleshooting notes for setup and GPU issues
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scvi-tools FAQ
What does the scvi-tools skill help with?
Deep-learning analysis of single-cell data, mainly integrating datasets and correcting batch effects with the scVI and scANVI models.
Who is it for?
Researchers and bioinformaticians who work with single-cell genomics data and use Python.
How does it work?
It points you to the workflow for your task, then to a reference file with detailed steps and code, and it provides scripts for common operations.
Where can I get help with installation or debugging?
The skill includes separate reference files for environment and GPU setup and for troubleshooting.
How do I install it?
Run npx skills add https://github.com/anthropics/knowledge-work-plugins --skill scvi-tools in your terminal.
Is it free?
Yes. The skill is listed as free on skills.sh.
What security audits has it passed?
skills.sh lists three audits: Gen Agent Trust Hub Pass, Socket Pass and Snyk Pass.
What are the best scvi-tools alternatives?
Popular alternatives to scvi-tools include scvi-tools, gget and anndata. See all scvi-tools alternatives