BioFlows Documentation

Contents:

• BioFlows Introduction
  • Overview
  • Design Goals
• BioFlows Architecture
  • (Cluster/Server) Tier
  • Client Tier - Client Toolkit
  • BioFlows Sharing Platforms
• BioFlows Definition Language
  • BioFlows Directives
  • Pipeline Example(s)
• Writing New Pipelines and Tools
  • Tool/Pipeline Definition
  • Adding Command section
  • Pipeline can contain Inputs and Outputs
  • Setting Initial Parameters
  • Share Your Tool
  • Reuse Your Tool
  • Containerizing your Tool
• Practical Tutorials
  • How to install
  • System Configuration File
  • BioFlows Tutorials
• Embedded Scripting
  • Introduction
  • Helper Functions
• Steps as Loops
  • A Loop Scenario
• Implicit Variables
• Command Line Options
• System Configuration
• BioFlows Cluster Setup & Management
• How To Share BioFlows Pipelines & Tools
• How To Contribute To BioFlows
  • As A Developer
  • As A Bioinformatician/Researcher