WrightonLabCSU/dram: Documentation

The WrightonLabCSU/dram documentation is split into the following pages:

• DRAM Installation Guide
  • Requirements
  • Installation Steps
  • Important Notes
  • Verification
• Introduction to DRAM2
  • Introduction
  • DRAM2 Overview & Workflow
  • Basic usage
  • Other DRAM products
  • Citing DRAM
• DRAM Usage
  • Basic command
  • Description of command-line options:
  • DRAM2 example commands
• Parameter API
  • Pipeline Steps
  • Input/output options
  • Call Prodigal Options
  • Annotate Options
  • QC Options
  • Summarize Options
  • Product Options
  • Adjectives Options
  • Database Options
  • Format Kegg Options
  • SLURM Options
  • Process Options
  • aliased_options
  • Institutional config options
  • Generic options
• DRAM Output
• Rule Expression Grammar and Parser
  • Overview
  • Expression Components
  • Core Design Principle: No Implicit Boolean Precedence
  • Functions
  • Valid vs Invalid Examples
• DRAM: Contribution
  • Nextflow resources
  • Nf-core
  • Main Structure of DRAM with Nextflow
  • Pipeline contribution conventions
• Changelog
  • 2.0.0-beta28 - 2026-04-15
  • 2.0.0-beta27 - 2026-03-18
  • 2.0.0-beta26 - 2026-03-09
  • 2.0.0-beta25 - 2026-03-04
  • 2.0.0-beta24 - 2026-02-03
  • 2.0.0-beta23 - 2026-02-01
  • 2.0.0-beta22 - 2025-12-17
  • 2.0.0-beta21 - 2025-12-15
  • 2.0.0-beta19 - 2025-11-21
  • 2.0.0-beta18 - 2025-11-21
  • 2.0.0-beta17 - 2025-09-23
  • 2.0.0-beta16 - 2025-09-17
  • 2.0.0-beta15 - 2025-08-27
  • 2.0.0-beta13 - 2025-07-29
  • 2.0.0-beta12 - 2025-07-08
  • 2.0.0-beta11 - 2025-06-11
  • 2.0.0-beta10 - 2025-06-07
  • 2.0.0-beta9 - 2025-05-22
  • 2.0.0-beta7 - 2025-05-12
  • 2.0.0-beta6 - 2025-04-03
  • 2.0.0-beta5 - 2024-11-05
  • 2.0.0-beta4 - 2024-11-05
  • 2.0.0-beta3 - 2024-10-15
• DRAM2 dictionary - Coming soon

Indices and tables

• Index

• Module Index

• Search Page