The changes introduce new configuration options for clique searching, state tracking for search outcomes, and logic for handling unreachable targets. Tests are added to verify search modes, failure conditions, and the correctness of coloring bounds.
Introduces a mechanism for tracking progress during clique finding operations. This includes implementing a progress bar state management system, handling visibility checks, and integrating progress reporting into the clique finding logic and result processing.
This commit introduces core functionality for oligonucleotide family tagging, constrained k-mer generation, and clique finding. It also includes updates to the Go language version and refactors the logic for k-mer dissimilarity metrics.
Eric Coissac