Bio-Data-Hub
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.
- 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: Export Data |
Export processed data. |
- |
Right-click on a .csv file in the Explorer to access the following options:
- Preview CSV
- Generate Metadata
- Visualize Data
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 |
Development
Scripts
- Compile:
npm run compile
- Watch:
npm run watch
- Lint:
npm run lint
- Test:
npm run test
Dependencies
| Dependency |
Version |
axios |
^1.6.2 |
csv-parser |
^3.2.0 |
d3 |
^7.0.0 |
minimatch |
^3.1.2 |
path |
^0.12.7 |
webview |
^1.1.0 |
Dev Dependencies
| Dependency |
Version |
@eslint/js |
^9.22.0 |
@types/chai |
^5.2.0 |
@types/glob |
^8.1.0 |
@types/mocha |
^8.2.3 |
@types/node |
^14.18.63 |
@types/vscode |
^1.64.0 |
@typescript-eslint/eslint-plugin |
^8.27.0 |
@typescript-eslint/parser |
^8.27.0 |
chai |
^5.2.0 |
electron |
^35.0.3 |
eslint |
^9.22.0 |
eslint-config-prettier |
^10.1.1 |
eslint-plugin-prettier |
^5.2.3 |
glob |
^7.2.3 |
globals |
^16.0.0 |
mocha |
^11.1.0 |
prettier |
^3.5.3 |
ts-node |
^10.9.2 |
typescript |
^4.9.5 |
typescript-eslint |
^8.27.0 |
vscode-test |
^1.5.2 |
Repository
GitHub Repository
Social Links
License
This project is licensed under a Private License. Unauthorized copying, distribution, or modification is prohibited.
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.
Happy coding with Bio-Data-Hub! 🚀
