foundation-model-analysis

What problem does it solve?

This Skill simplifies the complex process of using advanced foundation models for single-cell data analysis, enabling users to generate cell embeddings, annotate cell types, and integrate datasets without deep ML expertise.

Core Features & Use Cases

• Unified API: A consistent 6-step workflow for 22 different foundation models.
• Model Selection: Intelligent guidance on choosing the best model based on task, species, and hardware.
• Data Profiling & Validation: Automatically checks data compatibility and suggests preprocessing steps.
• Use Case: Analyze your single-cell RNA-seq data by generating cell embeddings using scGPT, then visualize these embeddings on a UMAP plot to identify distinct cell populations.

Quick Start

Generate scGPT embeddings for my PBMC dataset and visualize on UMAP.