dfeen87 · dfeen87 · Apr 5, 2026 · Apr 5, 2026 · Copilot · Apr 5, 2026
diff --git a/CITATION.cff b/CITATION.cff
@@ -16,7 +16,7 @@ authors:
     affiliation: Independent Researcher
 
 year: 2025
-version: 0.1.0
+version: 1.1.0
 license: MIT
 
 repository-code: "https://github.com/dfeen87/neuro-coherence-framework"

diff --git a/CONTRIBUTING.md b/CONTRIBUTING.md
@@ -1,7 +1,5 @@
 # Contributing to Neuro-Coherence Framework
 
-Thank you for your interest in the Neuro-Coherence Framework!
-
 ## Current Development Status
 
 **This project is currently in private development and validation.**

diff --git a/README.md b/README.md
@@ -20,7 +20,7 @@ At the center of the model is the **Neuro‑Coherence Function (Ψ)** — a math
 
 This repository contains a **research‑grade computational framework** for exploring that hypothesis through simulation, multimodal biomarkers, and falsifiable predictions.
 
-> **This is not a clinical tool.**  
+> **Note: This is not a clinical tool.**
 > It is a theoretical and computational research framework.
 
 ---
@@ -409,9 +409,9 @@ Consult qualified professionals for clinical care.
 
 ---
 
-## Acknowledgments
+## License
 
-I would like to acknowledge **Microsoft Copilot**, **Anthropic Claude**, for their meaningful assistance in refining concepts, improving clarity, and strengthening the overall quality of this code.
+This project is licensed under the MIT License - see the [LICENSE](LICENSE) file for details.
 
 ---
 

diff --git a/analysis/__init__.py b/analysis/__init__.py
@@ -1,3 +1,3 @@
 """Analysis package for Neuro-Coherence Framework."""
 
-__version__ = "0.1.0"
+__version__ = "1.1.0"
diff --git a/analysis/eeg/oscillatory_analysis.py b/analysis/eeg/oscillatory_analysis.py
@@ -1,8 +1,8 @@
 """EEG oscillatory analysis."""
 
-from typing import Tuple, Optional
+from typing import Tuple
 import numpy as np
-from scipy.signal import hilbert, butter, filtfilt
+from scipy.signal import hilbert
 
 
 def calculate_instantaneous_frequency(signal: np.ndarray, fs: float) -> np.ndarray:

diff --git a/analysis/eeg/phase_locking.py b/analysis/eeg/phase_locking.py
@@ -1,6 +1,6 @@
 """EEG analysis module - Phase Locking Value (PLV) calculations."""
 
-from typing import Optional, Tuple
+from typing import Optional
 import numpy as np
 from scipy.signal import hilbert, butter, filtfilt
 

diff --git a/analysis/fmri/network_metrics.py b/analysis/fmri/network_metrics.py
@@ -1,6 +1,5 @@
 """fMRI network metrics."""
 
-from typing import Optional
 import numpy as np
 
 

diff --git a/analysis/integration/multimodal_fusion.py b/analysis/integration/multimodal_fusion.py
@@ -81,8 +81,6 @@ def calculate_from_fmri(
         # Network-specific metrics if labels provided
         network_metrics = None
         if network_labels is not None:
-            from ..fmri.connectivity import calculate_network_connectivity
-
             # Dummy timeseries for network calculation
             # In real use, this would use actual timeseries
             within_conn, between_conn = self._calculate_network_stats(

diff --git a/data/synthetic/generate_data.py b/data/synthetic/generate_data.py
@@ -1,6 +1,6 @@
 """Synthetic data generation for Neuro-Coherence Framework."""
 
-from typing import Tuple, Optional
+from typing import Tuple
 import numpy as np
 
 

diff --git a/docs/CI_SETUP_COMPLETE.md b/docs/CI_SETUP_COMPLETE.md
@@ -1,8 +1,8 @@
-# CI Workflow Setup - Complete! 🎉
+# CI Workflow Setup - Complete
 
 ## What Was Done
 
-I've successfully created a comprehensive CI (Continuous Integration) workflow for the Neuro-Coherence Framework repository. Here's what was implemented:
+A comprehensive CI (Continuous Integration) workflow has been created for the Neuro-Coherence Framework repository. Here's what was implemented:
 
 ### 1. **GitHub Actions Workflow** (`.github/workflows/ci.yml`)
    - **Lint Job**: Checks code quality with flake8 and formatting with black
@@ -35,50 +35,41 @@ All local checks pass:
 - ✅ **CodeQL security**: Clean scan
 - ✅ **Code review**: No issues found
 
-## What You Need to Do 👉
+## Approval Process
 
-The CI workflow is ready to go, but it requires **one-time approval** for security reasons:
+The CI workflow is ready but may require one-time approval for security reasons:
 
 ### Steps to Approve the Workflow:
 
-1. Go to your repository on GitHub: https://github.com/dfeen87/Neuro-Coherence-Framework
-
-2. Click on the "Actions" tab
-
-3. You should see pending workflow runs with a yellow "⚠️ action_required" status
-
-4. Click on any of the pending runs
-
-5. You'll see a button that says **"Approve and run"** - click it
-
-6. Once approved, the workflow will run automatically on all future commits!
+1. Navigate to the repository on GitHub.
+2. Select the "Actions" tab.
+3. Locate any pending workflow runs with an "action_required" status.
+4. Select a pending run.
+5. Click **"Approve and run"**.
+6. The workflow will subsequently run automatically on future commits.
 
 ### Expected Result After Approval:
 
-Once you approve, you'll see the CI workflow run with:
-- ✅ **Lint and Format Check** job passing
-- ✅ **Test** jobs passing (5 jobs, one for each Python version)
-- ✅ **Type Check** job passing (may show warnings, but won't fail)
+The CI workflow will run with:
+- **Lint and Format Check** job passing
+- **Test** jobs passing (5 jobs, one for each Python version)
+- **Type Check** job passing (warnings may appear, but will not fail the job)
 
-The CI badge in your README will turn **green** ✅ showing "passing" status.
+The CI badge in the README will display a "passing" status.
 
-## Future Benefits
+## CI Benefits
 
-From now on, every push and pull request will automatically:
+Every push and pull request will automatically:
 1. Check code quality and formatting
 2. Run all tests across multiple Python versions
 3. Verify type hints
 4. Ensure no security issues are introduced
 
-This ensures code quality and prevents bugs from reaching the main branch!
-
-## Need Help?
-
-If you encounter any issues or have questions:
-- Check the `docs/CI.md` file for detailed documentation
-- Review workflow run logs in the GitHub Actions tab
-- All checks can be run locally using the commands in `docs/CI.md`
+This maintains code quality and prevents bugs from reaching the main branch.
 
----
+## Documentation
 
-**Thank you for the opportunity to contribute to this project!** 🚀
+For additional information:
+- Consult the `docs/CI.md` file for detailed documentation.
+- Review workflow run logs in the GitHub Actions tab.
+- Execute checks locally using the commands outlined in `docs/CI.md`.
diff --git a/setup.py b/setup.py
@@ -7,7 +7,7 @@
 
 setup(
     name="neuro-coherence-framework",
-    version="0.1.0",
+    version="1.1.0",
     author="Don Michael Feeney Jr.",
     description="A Computational Systems Neuroscience Approach to Affective Stability",
     long_description=long_description,

diff --git a/simulations/__init__.py b/simulations/__init__.py
@@ -11,7 +11,7 @@
     OperatorResult,
 )
 
-__version__ = "0.1.0"
+__version__ = "1.1.0"
 
 __all__ = [
     "NeuroCoherence",

diff --git a/simulations/core/neuro_coherence.py b/simulations/core/neuro_coherence.py
@@ -5,7 +5,7 @@
     Ψ = Φ · ∫∫∫ [ Θ(E) · Γ(t) · (1 − Δ_GR) · Λ(r,t) ] dE dr dt
 """
 
-from typing import Union, Optional, Tuple, Dict, Any
+from typing import Union, Optional, Dict, Any
 import numpy as np
 from dataclasses import dataclass
 from scipy import integrate