docs(research): update main cycle report - V39 additions (#415)

- New total: 31 documents, 18,066 lines
- New additions: Code Analysis (552 lines), Scientific Literature Synthesis (480 lines)
- Totals: 91 theorems, 47 algorithm boxes, 31 performance tables
- Scientific rigor: 14 references, 6-part literature synthesis
- Improvement proposals: 8 proposals across high/medium/low priority

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>

Author: Antigravity Agent

docs/research/AUTONOMOUS_CYCLE_SCIENCE_DOC_IMPROVEMENTS_20260326.md

@@ -15,7 +15,7 @@ Completed comprehensive scientific documentation improvements for Trinity S³AI
 - Code documentation patterns (VSA core, hybrid operations)
 - Publication requirements (reproducibility, statistical validation)
 
-**Total Deliverables:** 29 new documents (17,034 lines of scientific documentation)
+**Total Deliverables:** 31 new documents (18,066 lines of scientific documentation)
 
 ---
 
@@ -549,11 +549,11 @@ c8a6785fdb8 docs(research): add Trinity Scientific Publication Roadmap V1 - DARP
 
 | Metric | Value |
 |--------|-------|
-| New Documents | 29 |
-| Total Lines | 17,034 |
+| New Documents | 31 |
+| Total Lines | 18,066 |
 | Algorithm Boxes | 47 |
-| Theorems with Proofs | 85 |
-| Performance Tables | 29 |
+| Theorems with Proofs | 91 |
+| Performance Tables | 31 |
 | ASCII Diagrams | 24 |
 | LaTeX Templates | 6 |
 | Statistical Tables (95% CI) | 8 |
@@ -564,6 +564,8 @@ c8a6785fdb8 docs(research): add Trinity Scientific Publication Roadmap V1 - DARP
 | NeurIPS 2026 Supplementary | 1 (655 lines) |
 | DARPA CLARA Formal Verification | 1 (456 lines) |
 | ICLR 2027 Paper Template | 1 (417 lines) |
+| Code Analysis & Improvements | 1 (552 lines) |
+| Scientific Literature Synthesis | 1 (480 lines) |
 
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