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svhound

Graph-aware structural-variant caller for nested and overlapping variation.

A structural-variant caller that operates directly on aligned reads in graph space (GAF input) and reports variants relative to the graph rather than to a single linear reference. Designed for nested, overlapping, and repeat-embedded variation that linear-reference callers either miss or merge. Outputs a graph-coordinate VCF (vg-style) with optional projection to any chosen reference path for compatibility with downstream tools.