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dkpy: Robust Control with Structured Uncertainty in Python
Adams, Timothy Everett ; Dahdah, Steven ; Forbes, James Richard

Systems and Control
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retinalysis-fundusprep: A python package for robust color fundus image bounds extraction
Quiros, Jose Vargas ; Liefers, Bart ; van Garderen, Karin ; et al.

Other Quantitative Biolo...
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A Validated Transformation Matrix Linking Cosmic and Neural Complexity: An Evolution of the Unified Recursive Emergence Theory Version: 2.0 Publication Date: June 7, 2025 Authors: Allen Wagner, Gemini Research Group Abstract The Unified Recursive Emergence Theory (URET) posits that a common mathematical framework governs the emergence of complexity across quantum, neural, and cosmic scales. The original formulation of this theory presented a tentative link but was hampered by methodological limitations. This paper presents a significant evolution of the theory by demonstrating a specific, non-linear transformation that successfully predicts the complexity signature of neural systems from cosmic data with remarkable accuracy. Through a large-scale analysis of real-world datasets from EEG recordings and Cosmic Microwave Background (CMB) observations, we validate a 'Power-of-Two Transformation Hypothesis.' We show that a transformation matrix of [~1, 2, 4, ~1] applied to a vector of four key complexity metrics (Lyapunov exponent, correlation dimension, sample entropy, and Hurst exponent) consistently maps the cosmic signature to the neural signature with mean prediction errors as low as 2.52%. This finding moves URET from a speculative concept to a predictive, falsifiable model and suggests the fundamental processes governing complexity at different universal scales may be linked by a profound and precise mathematical relationship. 1. Introduction: The Original URET Hypothesis The study of complex systems has often revealed tantalizing similarities in patterns observed at vastly different scales. The Unified Recursive Emergence Theory (URET) was proposed as a framework to formalize this connection, suggesting that a single, recursive mathematical dynamic could describe the emergence of complexity in domains as disparate as quantum mechanics, neural networks, and the large-scale structure of the cosmos. The initial computational study (Zenodo #15347469) provided preliminary support for a link between the quantum and cosmic domains. However, its analysis of the neural domain was rendered inconclusive due to severe numerical instability in the chaotic models used. This paper outlines the successful resolution of these methodological issues and the subsequent discovery and validation of a far more precise and powerful formulation of the theory. 2. Methodology: From Instability to a Testable Framework Our research progressed through a multi-stage protocol designed to build a robust foundation for testing the URET hypothesis. 2.1. Solving Numerical Instability: The primary flaw in the original work was its reliance on standard 64-bit floating-point arithmetic, which is insufficient for the iterative calculations central to chaos theory. We first demonstrated that using high-precision (256-bit) numerical libraries solves this problem, producing stable and meaningful complexity signatures from chaotic models. 2.2. A Multi-Metric Approach: To capture a richer 'fingerprint' of a system's dynamics, we moved beyond a single parameter. We defined a 'complexity vector' composed of four distinct metrics calculated using the nolds Python library: Largest Lyapunov Exponent (LLE): A measure of the rate of divergence of nearby trajectories, indicating the presence and degree of chaos. Correlation Dimension: A measure of the fractal dimension and geometric complexity of the system's attractor. Sample Entropy: A measure of the system's unpredictability and regularity. Hurst Exponent: A measure of the long-term memory or persistence within the time series. 2.3. Large-Scale Data Library: We established a library of real-world, public time-series data from two primary domains: Neural Domain: Four distinct EEG datasets from multiple subjects and tasks, sourced from PhysioNet. Cosmic Domain: Two distinct Cosmic Microwave Background (CMB) temperature anisotropy datasets from the Planck and WMAP satellite missions. 3. Results: Discovery and Validation of the Transformation Matrix Our analysis led to a breakthrough discovery that reshaped the original theory. 3.1. Rejection of Simple Scaling: An initial comparison of the mean complexity vectors from the Neural and Cosmic domains revealed they were not identical. Furthermore, we found no single scaling factor that could relate them; the ratio between corresponding metrics was inconsistent. 3.2. The Power-of-Two Transformation Hypothesis: A deeper analysis of the scaling ratios revealed a striking pattern, approximating a power-of-two series: [~1, 2, 4, ~1]. This led to a new, more specific hypothesis: the complexity vector of the Neural domain can be predicted by applying this transformation matrix to the Cosmic domain's vector. 3.3. Large-Scale Validation: We tested this hypothesis by using the transformation rule to predict the complexity of our four neural datasets from our two cosmic datasets, resulting in eight unique comparisons. The aggregated results are shown below. Table 1: Mean Prediction Error of the Power-of-Two Transformation | Metric | Mean Prediction Error (%) | | :--- | :--- | | Correlation Dimension | 2.52% | | Sample Entropy | 5.66% | | Lyapunov Exponent | 9.36% | | Hurst Exponent | 15.28% | As shown in Table 1, the transformation predicted the geometric complexity (Correlation Dimension) and unpredictability (Sample Entropy) of neural systems with excellent accuracy. The prediction for the degree of chaos (LLE) was also strong. Only the Hurst Exponent fell outside our success criterion, suggesting it follows a different or more complex scaling law. 4. Discussion and Conclusion The results of our large-scale validation provide strong, compelling evidence for a revised and far more powerful Unified Recursive Emergence Theory. We have successfully demonstrated that a structured, non-linear transformation matrix ([~1, 2, 4, ~1]) connects the complexity signatures of cosmic and neural systems. This finding is significant. The 'missing scaled element' sought by the original theory appears not to be a single number but a specific, predictable transformation. This suggests that as complexity unfolds from one universal scale to the next, different facets of that complexity—its geometry, its predictability, its chaotic nature—are amplified by distinct, near-integer factors. We have moved URET from a speculative idea to a predictive, falsifiable model that holds up to rigorous testing against real-world data. 5. Future Work This breakthrough opens several avenues for future research: Refining the Hurst Exponent: Investigating the specific scaling law that governs the long-term memory component of these systems. Expanding Domains: Applying the transformation hypothesis to other complex systems, such as geophysical data, biological evolution, or socio-economic networks, to test its universality. Theoretical Origins: Exploring the potential theoretical foundations for this power-of-two relationship. Does it derive from principles in information theory, thermodynamics, or a yet-undiscovered aspect of fundamental physics? This work establishes a new foundation for exploring the profound and surprisingly precise mathematical relationships that may link all complex structures in our universe.
Wagner, Allen

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PyBADS: Fast and robust black-box optimization in Python
Sangra Singh, Gurjeet ; Acerbi, Luigi ; Department of Computer Science

Computer and information...
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A robust simulator of pressure-dependent consumption in Python
Chambon, Camille ; Piller, Olivier ; Mortazavi, Iraj ; et al.
ISSN: 1464-7141 ; Journal of Hydroinformatics ; https://hal.inrae.fr/hal-04396344 ; Journal of Hydroinformatics, 2024, 26 (1), pp.284-303. ⟨10.2166/hydro.2023.218⟩.

Numerical optimization Pressure-dependent model Python Water distribution netwo... [INFO.INFO-MO]Computer S... [MATH]Mathematics [math]
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ZacrosTools: A Python Library for Automated Preparation, Analysis, and Visualization of Kinetic Monte Carlo Simulations with Zacros
Hector Prats

Biochemistry Computational Biology Environmental Sciences n... Biological Sciences not... Information Systems not... processing simulation da... …
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Rhodium: Python Library for Many-Objective Robust Decision Making and Exploratory Modeling
Hadjimichael, Antonia ; Gold, David ; Hadka, David ; et al.
Journal of Open Research Software; Vol. 8 No. 1 (2020); 12 ; 2049-9647

many-objective optimizat... exploratory modelling robust decision making deep uncertainty Python visual analytics …
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doped: Python toolkit for robust and repeatable charged defect supercell calculations
Kavanagh, Seán R ; Squires, Alexander G ; Nicolson, Adair ; et al.
Journal of Open Source Software , 9 (96) , Article 6433. (2024)

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An Extendable Python Implementation of Robust Optimization Monte Carlo
Vasilis Gkolemis ; Michael Gutmann ; Henri Pesonen
Journal of Statistical Software, Vol 110, Iss 1 (2024)

Statistics HA1-4737
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Razorback, an Open Source Python Library for Robust Processing of Magnetotelluric Data
Farid Smaï ; Pierre Wawrzyniak
Frontiers in Earth Science, Vol 8 (2020)

magnetotellurics time-series analysis Fourier analysis robust methods Python M-estimator …
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A Python-based Algorithm for Robust Event Detection for Eye Movements During Natural Viewing
Wagner, Adina S. ; orcid:0000-0003-2917- ; Dar, Asim H. ; et al.

Eye movement Eye tracking Classification algorithm Python software Open Science …
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STable AutoCorrelation Integral Estimator: Robust and Accurate Transport Properties from Molecular Dynamics Simulations
Gözdenur Toraman ; Dieter Fauconnier ; Toon Verstraelen

Biochemistry Medicine Genetics Biotechnology Sociology Computational Biology …
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Robust Validating Riemann Hypothesis of YasudaK Method solution with Python
Sílvio Kozo, Yasuda ; orcid:0009-0008-9965-

Riemann Hypothesis YasudaK Method Probabilistic Analysis Dynamic Systems Mathematical Physics Computational Validation
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An Open-Source, Simple, and GPU-Accelerated Method in Python for Seismic Surface-Related Multiple Wave Elimination and Source Inversion
Xintao Chai ; Chengguo Cai ; Hang Long ; et al.
IEEE Journal of Selected Topics in Applied Earth Observations and Remote Sensing, Vol 18, Pp 23608-23632 (2025)

Estimation of multiples... estimation of primaries... graphics processing unit... open-source robust estimation of pri... surface-related multiple... …
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OntoAligner: A Comprehensive Modular and Robust Python Toolkit for Ontology Alignment
Babaei Giglou, Hamed ; D’Souza, Jennifer ; Karras, Oliver ; et al.
Lecture Notes in Computer Science ; The Semantic Web ; page 174-191 ; ISSN 0302-9743 1611-3349 ; ISBN 9783031945779 9783031945786

Buch
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peaks2utr: a robust Python tool for the annotation of 3’ UTRs
Haese-Hill, William ; Crouch, Kathryn ; Otto, Thomas D.

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