Add comprehensive THOL encapsulation documentation

Co-authored-by: fermga <203334638+fermga@users.noreply.github.com>

Author: Copilot

GLYPH_SEQUENCES_GUIDE.md

@@ -387,6 +387,8 @@ run_sequence(G, ecosystem, [Dissonance(), SelfOrganization()])
 # Result: New organization emerges from perturbation
 ```
 
+> **📖 THOL Encapsulation**: SELF_ORGANIZATION creates bifurcation windows that **encapsulate** internal operators. See [docs/THOL_ENCAPSULATION_GUIDE.md](docs/THOL_ENCAPSULATION_GUIDE.md) for complete details on designing sequences with THOL, including empty vs. non-empty windows, nested THOL, and common patterns.
+
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 ## Advanced Sequences