Bio Data Hub
March 3, 2026 ยท View on GitHub
A VS Code extension for biological data exploration..
Overview
Bio-Data-Hub is a powerful Visual Studio Code extension designed for bioinformatics professionals and data scientists. It simplifies the exploration, visualization, and management of CSV datasets, enabling users to analyze biological data efficiently.
Features
- Search Local Datasets: Quickly locate datasets on your machine.
- Search Online Datasets: Access online repositories for bioinformatics datasets.
- Download Datasets: Fetch datasets directly into your workspace.
- Preview CSV Files: View CSV data in a clean and organized format.
- Generate Metadata: Automatically create metadata for datasets.
- Visualize Data: Generate visualizations for better insights.
- PCA & Clustering: Generate PCA and K-Means clustering plots from CSV files.
- Export Data: Save processed data for further use.
Installation
- Open Visual Studio Code.
- Go to the Extensions view by clicking on the Extensions icon in the Activity Bar.
- Search for
Bio-Data-Hub. - Click Install.
Alternatively, clone the repository and build the extension locally:
git clone https://github.com/mubashir1837/BioDataHub.git
cd BioDataHub
npm install
npm run build
Usage
Commands
| Command | Description | Shortcut |
|---|---|---|
BioDataHub: Search Local Datasets | Search for datasets locally. | - |
BioDataHub: Search Online Datasets | Search for datasets online. | - |
BioDataHub: Download Dataset | Download datasets from online sources. | - |
BioDataHub: Preview CSV | Preview CSV files in the editor. | Ctrl+Shift+P |
BioDataHub: Generate Metadata | Generate metadata for datasets. | Ctrl+Shift+M |
BioDataHub: Visualize Data | Visualize CSV data. | Ctrl+Shift+V |
BioDataHub: PCA & Clustering | Generate PCA and K-Means clustering plot from a CSV | - |
BioDataHub: Export Data | Export processed data. | - |
Context Menu
Right-click on a .csv file in the Explorer to access the following options:
- Preview CSV
- Generate Metadata
- Visualize Data
- PCA & Clustering
Screenshots
Activity Bar Integration
Dataset View
Keybindings
| Keybinding | Command | When Condition |
|---|---|---|
Ctrl+Shift+P | Preview CSV | editorLangId == csv |
Ctrl+Shift+M | Generate Metadata | editorLangId == csv |
Ctrl+Shift+V | Visualize Data | editorLangId == csv |
Repository
Social Links
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Official Open VSX Publisher: Mubashir-Ali (mubashir1837)
Contributing
Contributions are welcome! Please fork the repository and submit a pull request.
Support
For any issues or feature requests, please open an issue on the GitHub Repository.
BioDataHub: An Integrated VS Code Extension for Streamlined Bioinformatics Dataset Analysis and Visualization https://doi.org/10.21203/rs.3.rs-7861003/v1
Happy coding with Bio-Data-Hub!