# Practical Guides This section provides practical guides and tutorials for common VariantCentrifuge workflows. ## Annotation Strategies Before using VariantCentrifuge, your VCF files should be properly annotated with functional predictions and population frequency data. Our annotation guides help you: - Choose the right annotation tools - Configure annotation pipelines - Optimize annotation for different analysis types - Troubleshoot common annotation issues ## Analysis Workflows Learn how to design and execute variant analysis workflows for different research contexts: - Rare disease analysis - Cancer genomics - Population genetics - Clinical diagnostics ## Advanced Usage Explore advanced VariantCentrifuge features and customization options: - Custom filter development - Variant scoring models - Cohort analysis workflows - Integration with other tools - Performance optimization ```{toctree} :maxdepth: 1 annotation_strategies cohort_analysis rare_disease_workflow cancer_analysis variant_scoring custom_filters performance_tips ```