App
An App in Via Foundry represents a modular and interactive tool designed to enhance the analysis, visualization, or management of data generated from bioinformatics pipelines. Apps offer users the flexibility to explore results, execute custom analyses, and interact with their data in a user-friendly environment, often powered by specialized software such as R Shiny, Jupyter Notebook, or other containerized solutions.
Accessing Apps
To access or manage Apps in Via Foundry:
- Navigate to the App tab on the side navigation bar.
- Explore available Apps
Types of Apps
Via Foundry supports a variety of Apps tailored for bioinformatics research:
- Shiny Apps: Provide dynamic, web-based interfaces for interactive analyses.
- Example: DEBrowser for differential expression analysis visualization.
- Jupyter Notebooks: Enable users to combine code execution, visualizations, and explanatory text in one environment.
- R-Markdown Reports: Generate and view detailed HTML or PDF reports of bioinformatics workflows.
- Custom Apps: Via Foundry host several specialized apps and you can create your own specialized apps.
- Example: Tensorboard monitor, debug, and optimizing machine learning experiments.
Launching Apps
Apps can be launched in two modes:
| Mode | Description |
|---|---|
| Standalone Mode | Launch Apps independently for general analysis or exploratory tasks. |
| Contextual Mode | Launch Apps directly from the Report Page, tailored to specific pipeline results or datasets. |
App Features
- Interactive Data Exploration: Apps provide visualization of complex genomic datasets, enabling exploratory analysis.
- Custom Workflows: Apps are just as customizable as pipelines in Via Foundry and can be readily tailored to your needs.
- Scalability: Apps are containerized, ensuring compatibility and performance across diverse computational environments.