Tutorials

Step-by-step tutorials to help you get started with CheckRef.

Available Tutorials

Getting Started

• Quick Start - Run your first CheckRef analysis in 5 minutes with test data

Additional Tutorials (Coming Soon)

We're working on more tutorials! Check back soon for:

• First Time Setup - Installing Nextflow and Docker/Singularity from scratch
• Understanding Output - Detailed explanation of all output files and what they mean
• Pre-Imputation QC - Using CheckRef before genotype imputation
• Multi-Cohort Harmonization - Harmonizing data across multiple cohorts
• HPC Cluster Usage - Running CheckRef on SLURM/PBS clusters efficiently
• Custom Profiles - Creating custom Nextflow configuration profiles
• Performance Optimization - Speeding up large-scale analyses
• Advanced Troubleshooting - Solving complex issues

Already Familiar?

If you're ready to dive in, check out:

• Guide - Complete documentation
• Examples - Copy-paste example commands
• Parameters - Full parameter reference

Need Help?

• FAQ - Frequently asked questions
• GitHub Issues - Report bugs or ask questions
• AfriGen-D Helpdesk - Get expert support