1---2name: compbioagent-explorer3description: scRNA-seq Explorer4license: MIT5---67<!--8# COPYRIGHT NOTICE9# This file is part of the "Universal Biomedical Skills" project.10# Copyright (c) 2026 MD BABU MIA, PhD <md.babu.mia@mssm.edu>11# All Rights Reserved.12#13# This code is proprietary and confidential.14# Unauthorized copying of this file, via any medium is strictly prohibited.15#16# Provenance: Authenticated by MD BABU MIA1718-->192021# CompBioAgent (Single-Cell Explorer)2223An LLM-powered web application for single-cell RNA-seq data exploration, integrating with CellDepot and Cellxgene VIP.2425## When to Use2627* **Interactive Exploration**: When you need to visually explore a dataset without writing code.28* **Hypothesis Generation**: Quickly checking expression of specific markers across clusters.29* **Sharing**: Presenting data to non-computational collaborators.3031## Core Capabilities32331. **Natural Language Querying**: "Show me the expression of TP53 in the B-cell cluster."342. **Cellxgene Integration**: Leverages robust visualization tools.353. **Data Integration**: Connects with CellDepot for dataset retrieval.3637## Workflow38391. **Setup**: `pip install compbioagent`.402. **Launch**: `compbioagent start --data ./data.h5ad`.413. **Interact**: Open the local URL (e.g., http://localhost:8050) and chat with the agent to generate plots.4243## Example Usage4445**User**: "Launch the explorer for my kidney dataset."4647**Agent Action**:48```bash49compbioagent launch --port 8080 --data ./kidney_atlas.h5ad50```515253<!-- AUTHOR_SIGNATURE: 9a7f3c2e-MD-BABU-MIA-2026-MSSM-SECURE -->
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