Welcome to Workflomics’s Documentation

Welcome to the official documentation for Workflomics—a platform designed to empower bioinformaticians in the generation and comparison of computational workflows for life science research.

Introduction

Workflomics addresses the challenges faced by researchers dealing with large and complex datasets by facilitating the creation of optimal data analysis workflows. It integrates bioinformatics tools and metadata with technologies for automated workflow exploration and benchmarking. This innovative approach supports the development of advanced workflows in bioinformatics, particularly within the proteomics domain, enhancing scientific quality, robustness, reproducibility, FAIRness (Findability, Accessibility, Interoperability, and Reusability), and maintainability.

The platform currently focuses on proteomics and plans to expand into other domains, such as metabolomics and genomics, to further support the life sciences community.

Contents

Basics

• Installation Guide
  • Development Setup
  • Deployment

User Guide

• Web Interface
  • Accessing Workflomics
  • Generate Workflows
  • Upload Benchmark Results
  • Conclusion

Workflomics benchmarker

• Local Benchmarking Setup
  • Installing Python
  • Setting Up a Virtual Environment
  • Installing Workflomics Benchmarker
  • Supporting Containerization
  • Running Workflows
  • Visualizing Benchmark Results

Getting Started

• Installation: Learn how to set up Workflomics on your local machine or server.

• Web Interface: An overview of the Workflomics web interface and how to use it for workflow generation and comparison.

Benchmarking Workflows

• Benchmarker: Detailed instructions on how to benchmark computational workflows using Workflomics, including requirements and step-by-step guides.

Note

This project is under active development. Features and documentation are subject to change.