README.md

---
title: GLUE Agent MCP
emoji: 🧬
colorFrom: blue
colorTo: purple
sdk: docker
app_port: 7860
pinned: false
---

# GLUE Agent MCP Server

Remote MCP (Model Context Protocol) server for **GLUE** (Graph-Linked Unified Embedding) multi-omics data integration.

## Tools

### Preprocessing
- **glue_preprocess_scrna** — Preprocess scRNA-seq data with HVG selection, normalization, and PCA
- **glue_preprocess_scatac** — Preprocess scATAC-seq data with LSI dimension reduction
- **glue_construct_regulatory_graph** — Construct prior regulatory graph linking RNA and ATAC features

### Training
- **glue_configure_datasets** — Configure RNA-seq and ATAC-seq datasets for GLUE model training
- **glue_train_model** — Train GLUE model for multi-omics integration
- **glue_check_integration_consistency** — Evaluate integration quality with consistency scores
- **glue_generate_embeddings** — Generate cell and feature embeddings from trained GLUE model

## Usage

Add to your MCP client config:

```json
{
  "mcpServers": {
    "GLUE_Agent": {
      "url": "https://dmannk-glue-agent-mcp.hf.space/mcp"
    }
  }
}
```