fanglu0411 / sgs

SGS, is a user-friendly, collaborative and versatile browser for visualizing single-cell and spatial multiomics data.

SGS: An Integrative Browser for Collaborative Visualization of Single-cell and Spatial Multimodal Data

🎉 SGS, a user-friendly ⚡, collaborative ⚡ and versatile ⚡ browser for visualizing single-cell and spatial multiomics data, including scRNA, spatial transcriptomics, scATAC, scMethylC, sc-eQTL etc. With advanced features for comparative visualization, multi-panel coordiniate view, abundant visualization functions and collaborative exploration, SGS empowers researchers to unlocking the novel insights from scMulti-omics data 🎉.

🚀 Document

Instructions, documentation, and tutorials can be found at: SGS Website

⚙️ Installation

Make Sure Docker is installed on your server SGS primarily utilizes Docker and Flutter technologies to achieve graphical one-click installation. SGS supports the following three deployment methods:

🎈🎈🎈 Quick Start

The SGS browser consists of two main components: the SGS server and SGS client. Once you have downloaded and installed the SGS client, you need to deploy the SGS server for data visualization.

Please note that SGS server deployment relies on Docker, so make sure Docker is configured!

👋 (Recommended）Graphical installation tutorial

Manual installation (Optional）

If you want to customize the container configuration items, please refer to the manual installation tutorial: Manual installation

💻 File Format and Conversion

• SGS supports various data formats including Anndata, Mudata, and genome-mapped files (GFF, VCF, BED, Bigwig, HiC, Biginteract, Longrange, methylC, Gwas,).
• The SgsAnnData R package enables seamless data format conversion with analysis tools like Seurat, ArchR, Signac, and Giotto.
• SgsAnnData can be access by the following links: SgsAnnData gtihub

🌱 Reporting Issues

If you found an issue, please report it along with any relevant details to reproduce it. Thanks.

😊 Contact

• Yi Wang ([e-mail])
• Fang Lu ([e-mail])
• Yongjiang Luo ([e-mail])
• Tingting Xia ([e-mail])
• Jiahe Sun ([e-mail])

🌹 Citiation

Xia, T., Sun, J., Lu, F., Luo, Y., Mao, Y., Xu, L., & Wang, Y. (2024). Empowering Integrative and Collaborative Exploration of Single-Cell and Spatial Multimodal Data with SGS. bioRxiv, (), 2024.07.19.604227. Accessed July 23, 2024. https://doi.org/10.1101/2024.07.19.604227.

👉 License

SGS Copyright (c) 2024 Wang lab. All rights reserved. This software is distributed under the MIT License (MIT).