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Use when working with SATURN for cross-species single-cell RNA-seq integration that combines AnnData count matrices with protein embedding TorchDicts. SATURN trains macrogene representations with k-me
Use with AI
Install the MCP server or CLI to instantly fetch SATURN documentation:
Install command
claude mcp add biocontext7 -- npx @biocontext7/mcpOr share this page: biocontext7.com/tools/saturn
Expression Atlas is the EMBL-EBI database and programmatic toolkit for querying baseline and differential gene expression across thousands of experiments in 50+ species. Use this skill to search exper
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nf-core — community-curated Nextflow pipeline framework with 100+ production bioinformatics pipelines. Provides CLI tools for listing, launching, downloading, creating, and linting pipelines; managing
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UCE (Universal Cell Embeddings) — species-agnostic cell embedding model from Stanford SNAP Lab that uses protein language models (ESM-2) to create universal cell representations without species-specif
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CytoTRACE -- computational method for predicting relative differentiation state of cells from single-cell RNA-seq data. Uses gene counts (number of detectably expressed genes per cell) as a robust pro
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DecontX — R/Bioconductor method in the celda package for estimating and removing ambient RNA contamination from droplet-based single-cell RNA-seq data. Uses a Bayesian Dirichlet mixture model over cel
2 shared topics • 1 shared operation