gretl

gretl analyses genome graphs to evaluate their structure and composition and identify genomic variations that traditional linear references miss.

Key Features:

• Graph Statistics: Provides a wide range of statistics for evaluating genome graph structure and composition.
• Graph Comparison: Enables comparison of different graphs and evaluation of graph construction pipeline outputs with different parameters.
• Sample-Specific Analysis: Supports in-depth analysis of individual graphs including sample-specific analysis.
• Performance: Outperforms other tools in speed, particularly for larger genome graphs.

Scientific Applications:

• Genetic Variation Discovery: Identifies novel patterns of genetic variation and potential regions of interest for detailed inspection.
• Graph Construction Pipeline Evaluation: Compares outputs of graph construction pipelines with different parameters.
• Population Diversity Analysis: Analyses genetic diversity within populations represented in genome graphs.

Methodology:

Implemented in Rust.