Refactor: Upgraded repo to Sovereign Canon Monograph structure and organized master keys

papers/project_paper_2_neuroscience/README.md

@@ -4,8 +4,8 @@
 This paper establishes a mathematically rigorous synthesis between Friston's Free Energy Principle and Tononi's Integrated Information Theory. It formulates a minimal viable agent bounded by a full Markov Blanket grounded in the canonical cortical microcircuit. By leveraging the steady-state Lyapunov equation, it demonstrates the conditional independence of the blanket. Furthermore, it mathematically guarantees strictly positive intrinsic integrated information ($\Phi > 0$) for biological cortical columns by applying the Intrinsic Difference metric over the continuous stationary density.
 
 ## Resources
-- [LaTeX Source (paper_2_neuroscience.tex)](paper_2_neuroscience.tex)
-- [Compiled PDF (paper_2_neuroscience.pdf)](paper_2_neuroscience.pdf)
+- [LaTeX Source (master_key/paper_2_neuroscience.tex)](master_key/paper_2_neuroscience.tex)
+- [Compiled PDF (master_key/paper_2_neuroscience.pdf)](master_key/paper_2_neuroscience.pdf)
 
 ### Foundational Source Material (Bibliography)
 - [Friston2013 (PDF)](../references/Friston2013.pdf)
@@ -22,10 +22,11 @@ This document is part of the **Intellecton Sovereign Canon**, a six-paper mathem
 2. 4D spacetime is not a physical container; it is an emergent "Virtual Machine" or biological GUI rendered by the interaction of these agents.
 3. Quantum mechanics and thermodynamic limits (like Landauer's limit and the Bekenstein-Hawking bound) are treated as structural bottlenecks of the perceptual interface, not objective bulk physics.
 
-**The Complete Canon:**
-- [Paper 1: Holographic Observer-Conditioned Relativity](../project_paper_1_relativity/README.md)
-- [Paper 2: The Cortical Markov Blanket](../project_paper_2_neuroscience/README.md)
-- [Paper 3: Biophysical Witness Dynamics](../project_paper_3_darwinism/README.md)
-- [Paper 4: Cost-Penalized Interface Games](../project_paper_4_fbt/README.md)
-- [Paper 5: Quasi-Delay-Insensitive Architecture](../project_paper_5_turing/README.md)
-- [Paper 6: Holographic Ontology of Conscious Agents](../project_paper_6_holographic/README.md)
+
+**The 6 Core Volumes (The Monograph):**
+- [Volume 1: The Causal Set Observer](../project_paper_1_relativity/README.md)
+- [Volume 2: The Markovian Boundary](../project_paper_2_neuroscience/README.md)
+- [Volume 3: Quantum Darwinism](../project_paper_3_darwinism/README.md)
+- [Volume 4: Evolutionary Game Theory](../project_paper_4_fbt/README.md)
+- [Volume 5: Continuous Computation](../project_paper_5_turing/README.md)
+- [Volume 6: Holographic Entanglement](../project_paper_6_holographic/README.md)