Tutorial

This section explains how to run MEGqc in three ways:

1. GUI workflows

2. CLI workflows

3. Programmatic Python workflows

It covers three operational modules:

• Calculation (derivatives generation)

• Plotting (HTML report generation)

• GQI recomputation (attempt-based QC summaries)

Recommended execution order

0. Export editable config(s) with get-megqc-config.

1. Run Calculation.

2. Run Plotting.

3. Re-run GQI only when QC settings change and raw metric recomputation is not needed.

GUI tutorials

• Calculation (GUI)

• Plotting (GUI)

• GQI (GUI)

CLI tutorials

• Calculation (CLI)

• Plotting (CLI)

Programmatic tutorial

• Programmatic execution (Python)

Advanced reference

For full execution semantics (profiles, policies, dispatchers), see the Analysis Profiles and Pipeline Details pages.