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Oct 16

Earthquake Phase Association with Graph Neural Networks

Seismic phase association connects earthquake arrival time measurements to their causative sources. Effective association must determine the number of discrete events, their location and origin times, and it must differentiate real arrivals from measurement artifacts. The advent of deep learning pickers, which provide high rates of picks from closely overlapping small magnitude earthquakes, motivates revisiting the phase association problem and approaching it using the methods of deep learning. We have developed a Graph Neural Network associator that simultaneously predicts both source space-time localization, and discrete source-arrival association likelihoods. The method is applicable to arbitrary geometry, time-varying seismic networks of hundreds of stations, and is robust to high rates of sources and input picks with variable noise and quality. Our Graph Earthquake Neural Interpretation Engine (GENIE) uses one graph to represent the station set and another to represent the spatial source region. GENIE learns relationships from data in this combined representation that enable it to determine robust source and source-arrival associations. We train on synthetic data, and test our method on real data from the Northern California (NC) seismic network using input generated by the PhaseNet deep learning phase picker. We successfully re-detect ~96% of all events M>1 reported by the USGS during 500 random days between 2000x20132022. Over a 100-day continuous interval of processing in 2017x20132018, we detect ~4.2x the number of events reported by the USGS. Our new events have small magnitude estimates below the magnitude of completeness of the USGS catalog, and are located close to the active faults and quarries in the region. Our results demonstrate that GENIE can effectively solve the association problem under complex seismic monitoring conditions.

  • 2 authors
·
Sep 14, 2022

Seismic Arrival-time Picking on Distributed Acoustic Sensing Data using Semi-supervised Learning

Distributed Acoustic Sensing (DAS) is an emerging technology for earthquake monitoring and subsurface imaging. The recorded seismic signals by DAS have several distinct characteristics, such as unknown coupling effects, strong anthropogenic noise, and ultra-dense spatial sampling. These aspects differ from conventional seismic data recorded by seismic networks, making it challenging to utilize DAS at present for seismic monitoring. New data analysis algorithms are needed to extract useful information from DAS data. Previous studies on conventional seismic data demonstrated that deep learning models could achieve performance close to human analysts in picking seismic phases. However, phase picking on DAS data is still a difficult problem due to the lack of manual labels. Further, the differences in mathematical structure between these two data formats, i.e., ultra-dense DAS arrays and sparse seismic networks, make model fine-tuning or transfer learning difficult to implement on DAS data. In this work, we design a new approach using semi-supervised learning to solve the phase-picking task on DAS arrays. We use a pre-trained PhaseNet model as a teacher network to generate noisy labels of P and S arrivals on DAS data and apply the Gaussian mixture model phase association (GaMMA) method to refine these noisy labels to build training datasets. We develop a new deep learning model, PhaseNet-DAS, to process the 2D spatial-temporal data of DAS arrays and train the model on DAS data. The new deep learning model achieves high picking accuracy and good earthquake detection performance. We then apply the model to process continuous data and build earthquake catalogs directly from DAS recording. Our approach using semi-supervised learning provides a way to build effective deep learning models for DAS, which have the potential to improve earthquake monitoring using large-scale fiber networks.

  • 6 authors
·
Feb 17, 2023

Digital Metabolism: Decoupling Logic from Facts via Regenerative Unlearning -- Towards a Pure Neural Logic Core

Large language models (LLMs) currently suffer from parameter entanglement, where general reasoning capabilities (logic) and specific factual knowledge (facts) exist in a superposition state within shared weights. This coupling leads to the "memory wall," where computational capacity is squandered on simulating retrieval, often resulting in hallucinations. In this paper, we propose "digital metabolism," a thermodynamic hypothesis suggesting that targeted forgetting is necessary for distilling a pure neural logic core. To validate this hypothesis, we introduce the Regenerative Logic-Core Protocol (RLCP), a dual-stream training framework that renders specific factual dependencies linearly undecodable via deep-layer gradient reversal. Applying RLCP to Qwen2.5-0.5B, we observe a distinct phase transition: the model achieves near-zero retention of targeted factual associations (Accuracy < 7%) while exhibiting changes consistent with an emergent "structural crystallization" effect. Empirical analysis on GSM8K reveals that the "metabolized" model spontaneously adopts chain-of-thought (CoT) scaffolding, which we interpret as compensating for the loss of direct associative recall (shifting from O(1) recall to O(N) reasoning). While the causal mechanism underlying this behavioral shift requires further investigation, our findings provide a dynamic weight-level counterpart to architectural innovations like DeepSeek's Engram, paving the way for modular "Neural CPU + Symbolic RAM" architectures.

  • 3 authors
·
Jan 14

Global Rotation Equivariant Phase Modeling for Speech Enhancement with Deep Magnitude-Phase Interaction

While deep learning has advanced speech enhancement (SE), effective phase modeling remains challenging, as conventional networks typically operate within a flat Euclidean feature space, which is not easy to model the underlying circular topology of the phase. To address this, we propose a manifold-aware magnitude-phase dual-stream framework that aligns the phase stream with its intrinsic circular geometry by enforcing Global Rotation Equivariance (GRE) characteristic. Specifically, we introduce a Magnitude-Phase Interactive Convolutional Module (MPICM) for modulus-based information exchange and a Hybrid-Attention Dual-FFN (HADF) bottleneck for unified feature fusion, both of which are designed to preserve GRE in the phase stream. Comprehensive evaluations are conducted across phase retrieval, denoising, dereverberation, and bandwidth extension tasks to validate the superiority of the proposed method over multiple advanced baselines. Notably, the proposed architecture reduces Phase Distance by over 20\% in the phase retrieval task and improves PESQ by more than 0.1 in zero-shot cross-corpus denoising evaluations. The overall superiority is also established in universal SE tasks involving mixed distortions. Qualitative analysis further reveals that the learned phase features exhibit distinct periodic patterns, which are consistent with the intrinsic circular nature of the phase. The source code is available at https://github.com/wangchengzhong/RENet.

  • 4 authors
·
Feb 9

Mean Field Theory Based on the Spike Time Response Curve for Synchronization Within and Between Two Alternating Populations of Neural Oscillators with Delays

In order to study oscillators coupled by pulses emitted at discrete times, it is generally assumed that the effect of each pulse is an instantaneous phase shift, with a possible conduction delay between emission and receipt. However, we are interested in neural oscillators in which each pulse (action potential) activates a biexponential synapse, and at high frequencies, the duration of the synaptic conductance may be greater than the network period. Therefore, the effect of received pulses can summate over the course of several cycles. To overcome this limitation, we previously defined a mean field approach for a single synchronous population. Here, we extend it to two alternating synchronous populations by assuming a perturbation of a single oscillator from one of the synchronous populations which is represented by a single self-connected neural oscillator. The train of delayed biexponential synapses emitted by each oscillator is divided into a tonic and a phasic component. Because of the continuous rather than pulsatile nature of the input, we had to drop the concept of oscillator phase and derive self-consistent criteria for the existence and stability of an alternating firing pattern between two synchronous populations based solely on the perturbation of time intervals from their steady state values. Simulations showed that for high frequency oscillations as defined above, the mean field approach predicts the existence and stability of phase-locking between two synchronous populations better than the instantaneous phase shift approach. This approach may generalize to other forms of coupling amongst non-neural oscillators.

  • 2 authors
·
Oct 6

A Topological and Operator Algebraic Framework for Asynchronous Lattice Dynamical Systems

I introduce a novel mathematical framework integrating topological dynamics, operator algebras, and ergodic geometry to study lattices of asynchronous metric dynamical systems. Each node in the lattice carries an internal flow represented by a one-parameter family of operators, evolving on its own time scale. I formalize stratified state spaces capturing multiple levels of synchronized behavior, define an asynchronous evolution metric that quantifies phase-offset distances between subsystems, and characterize emergent coherent topologies arising when subsystems synchronize. Within this framework, I develop formal operators for the evolution of each subsystem and give precise conditions under which phase-aligned synchronization occurs across the lattice. The main results include: (1) the existence and uniqueness of coherent (synchronized) states under a contractive coupling condition, (2) stability of these coherent states and criteria for their emergence as a collective phase transition in a continuous operator topology, and (3) the influence of symmetries, with group-invariant coupling leading to flow-invariant synchrony subspaces and structured cluster dynamics. Proofs are given for each theorem, demonstrating full mathematical rigor. In a final section, I discuss hypothetical applications of this framework to symbolic lattice systems (e.g. subshifts), to invariant group actions on dynamical lattices, and to operator fields over stratified manifolds in the spirit of noncommutative geometry. Throughout, I write in the first person to emphasize the exploratory nature of this work. The paper avoids any reference to cosmology or observers, focusing instead on clean, formal mathematics suitable for a broad array of dynamical systems.

  • 1 authors
·
May 14, 2025

SPRMamba: Surgical Phase Recognition for Endoscopic Submucosal Dissection with Mamba

Endoscopic Submucosal Dissection (ESD) is a minimally invasive procedure initially developed for early gastric cancer treatment and has expanded to address diverse gastrointestinal lesions. While computer-assisted surgery (CAS) systems enhance ESD precision and safety, their efficacy hinges on accurate real-time surgical phase recognition, a task complicated by ESD's inherent complexity, including heterogeneous lesion characteristics and dynamic tissue interactions. Existing video-based phase recognition algorithms, constrained by inefficient temporal context modeling, exhibit limited performance in capturing fine-grained phase transitions and long-range dependencies. To overcome these limitations, we propose SPRMamba, a novel framework integrating a Mamba-based architecture with a Scaled Residual TranMamba (SRTM) block to synergize long-term temporal modeling and localized detail extraction. SPRMamba further introduces the Hierarchical Sampling Strategy to optimize computational efficiency, enabling real-time processing critical for clinical deployment. Evaluated on the ESD385 dataset and the cholecystectomy benchmark Cholec80, SPRMamba achieves state-of-the-art performance (87.64% accuracy on ESD385, +1.0% over prior methods), demonstrating robust generalizability across surgical workflows. This advancement bridges the gap between computational efficiency and temporal sensitivity, offering a transformative tool for intraoperative guidance and skill assessment in ESD surgery. The code is accessible at https://github.com/Zxnyyyyy/SPRMamba.

  • 8 authors
·
Sep 18, 2024

PhaseNet: A Deep-Neural-Network-Based Seismic Arrival Time Picking Method

As the number of seismic sensors grows, it is becoming increasingly difficult for analysts to pick seismic phases manually and comprehensively, yet such efforts are fundamental to earthquake monitoring. Despite years of improvements in automatic phase picking, it is difficult to match the performance of experienced analysts. A more subtle issue is that different seismic analysts may pick phases differently, which can introduce bias into earthquake locations. We present a deep-neural-network-based arrival-time picking method called "PhaseNet" that picks the arrival times of both P and S waves. Deep neural networks have recently made rapid progress in feature learning, and with sufficient training, have achieved super-human performance in many applications. PhaseNet uses three-component seismic waveforms as input and generates probability distributions of P arrivals, S arrivals, and noise as output. We engineer PhaseNet such that peaks in probability provide accurate arrival times for both P and S waves, and have the potential to increase the number of S-wave observations dramatically over what is currently available. This will enable both improved locations and improved shear wave velocity models. PhaseNet is trained on the prodigious available data set provided by analyst-labeled P and S arrival times from the Northern California Earthquake Data Center. The dataset we use contains more than seven million waveform samples extracted from over thirty years of earthquake recordings. We demonstrate that PhaseNet achieves much higher picking accuracy and recall rate than existing methods.

  • 2 authors
·
Mar 8, 2018

Dynamical phase diagram of synchronization in one dimension: universal behavior from Edwards-Wilkinson to random deposition through Kardar-Parisi-Zhang

Synchronization in one dimension displays generic scale invariance with universal properties previously observed in surface kinetic roughening and the wider context of the Kardar-Parisi-Zhang (KPZ) universality class. This has been established for phase oscillators and also for some limit-cycle oscillators, both in the presence of columnar (quenched) disorder and of time-dependent noise, by extensive numerical simulations, and has been analytically motivated by continuum approximations in the strong oscillator coupling limit. The robustness and the precise boundaries in parameter space for such critical behavior remain unclear, however, which may preclude further developments, including the extension of these results to higher dimensions and the experimental observation of nonequilibrium criticality in synchronizing (e.g.~electronic or chemical) oscillators. We here present complete numerical phase diagrams of one-dimensional synchronization, including saturation times and values, but, most importantly, also dynamical features giving insight into the gradual emergence of synchronous dynamics, based on systems of phase oscillators with either type of randomness. In the absence of synchronization, the dynamics evolves as expected for random deposition (for time-dependent noise) or linear growth (for columnar disorder), while a crossover from Edwards-Wilkinson to Kardar-Parisi-Zhang behavior (with the corresponding type of randomness) is observed as the randomness strength, or the nonoddity of the coupling among oscillators, is increased in the synchronous region -- their combined effect being partially captured by the so-called KPZ coupling. The distortion of scaling due to phase slips near the desynchronization boundary, a feature that is likely to play a role in experimental contexts, is also discussed.

  • 2 authors
·
Apr 6

M^3-VOS: Multi-Phase, Multi-Transition, and Multi-Scenery Video Object Segmentation

Intelligent robots need to interact with diverse objects across various environments. The appearance and state of objects frequently undergo complex transformations depending on the object properties, e.g., phase transitions. However, in the vision community, segmenting dynamic objects with phase transitions is overlooked. In light of this, we introduce the concept of phase in segmentation, which categorizes real-world objects based on their visual characteristics and potential morphological and appearance changes. Then, we present a new benchmark, Multi-Phase, Multi-Transition, and Multi-Scenery Video Object Segmentation (M^3-VOS), to verify the ability of models to understand object phases, which consists of 479 high-resolution videos spanning over 10 distinct everyday scenarios. It provides dense instance mask annotations that capture both object phases and their transitions. We evaluate state-of-the-art methods on M^3-VOS, yielding several key insights. Notably, current appearance-based approaches show significant room for improvement when handling objects with phase transitions. The inherent changes in disorder suggest that the predictive performance of the forward entropy-increasing process can be improved through a reverse entropy-reducing process. These findings lead us to propose ReVOS, a new plug-andplay model that improves its performance by reversal refinement. Our data and code will be publicly available at https://zixuan-chen.github.io/M-cube-VOS.github.io/.

  • 7 authors
·
Dec 18, 2024

A Model Zoo on Phase Transitions in Neural Networks

Using the weights of trained Neural Network (NN) models as data modality has recently gained traction as a research field - dubbed Weight Space Learning (WSL). Multiple recent works propose WSL methods to analyze models, evaluate methods, or synthesize weights. Weight space learning methods require populations of trained models as datasets for development and evaluation. However, existing collections of models - called `model zoos' - are unstructured or follow a rudimentary definition of diversity. In parallel, work rooted in statistical physics has identified phases and phase transitions in NN models. Models are homogeneous within the same phase but qualitatively differ from one phase to another. We combine the idea of `model zoos' with phase information to create a controlled notion of diversity in populations. We introduce 12 large-scale zoos that systematically cover known phases and vary over model architecture, size, and datasets. These datasets cover different modalities, such as computer vision, natural language processing, and scientific ML. For every model, we compute loss landscape metrics and validate full coverage of the phases. With this dataset, we provide the community with a resource with a wide range of potential applications for WSL and beyond. Evidence suggests the loss landscape phase plays a role in applications such as model training, analysis, or sparsification. We demonstrate this in an exploratory study of the downstream methods like transfer learning or model weights averaging.

  • 6 authors
·
Apr 25, 2025 2

On the Mechanism and Dynamics of Modular Addition: Fourier Features, Lottery Ticket, and Grokking

We present a comprehensive analysis of how two-layer neural networks learn features to solve the modular addition task. Our work provides a full mechanistic interpretation of the learned model and a theoretical explanation of its training dynamics. While prior work has identified that individual neurons learn single-frequency Fourier features and phase alignment, it does not fully explain how these features combine into a global solution. We bridge this gap by formalizing a diversification condition that emerges during training when overparametrized, consisting of two parts: phase symmetry and frequency diversification. We prove that these properties allow the network to collectively approximate a flawed indicator function on the correct logic for the modular addition task. While individual neurons produce noisy signals, the phase symmetry enables a majority-voting scheme that cancels out noise, allowing the network to robustly identify the correct sum. Furthermore, we explain the emergence of these features under random initialization via a lottery ticket mechanism. Our gradient flow analysis proves that frequencies compete within each neuron, with the "winner" determined by its initial spectral magnitude and phase alignment. From a technical standpoint, we provide a rigorous characterization of the layer-wise phase coupling dynamics and formalize the competitive landscape using the ODE comparison lemma. Finally, we use these insights to demystify grokking, characterizing it as a three-stage process involving memorization followed by two generalization phases, driven by the competition between loss minimization and weight decay.

The elusive fluid-and-crystal coexistence state in simulations of monodisperse, hard-sphere colloids

Monodisperse, purely repulsive, hard spheres (MPRHS) are an important model system for mechanistically exploring phase behavior in atomic systems and colloids. Since the 1940s, phase transitions in these systems have been obtained via simulation, theory, and experiments. But there is a gap in this literature: despite decades of reports of phase transition from one pure state to another, no computational studies report spontaneous phase separation into coexisting domains of liquid and crystal regions. This gap owes its origin to the underlying mechanism of entropically-driven phase separation in MPRHS - the competition between short-range entropy and long-range entropy. Frenkel proposed that spontaneous phase separation in simulations of up to 1,000,000 particles would require more than 317,000,000 years to sample enough microstates to converge to phase separated macrostate. Some brute-force simulations do show brief spontaneous coexistence but a metastable crystal or fluid subsequently overtakes the system. To bypass these difficulties, many studies use seeding, gravity, or direct construction of liquid and solid phases to study interfacial energy and nucleation rates of MPRHS systems. WCA potentials have also been used to bypass metastability, where softness provides free volume, lowers osmotic pressure and the energy barrier. It is argued that the transition path taken in bypassing metastability is mechanistically the same as without triggers. But as acknowledged by Alder & Wainwright, explicit observation of spontaneous coexistence is central to computational prediction of first-order transition. Such observation would provide satisfying demonstration of Frenkel's entropy exchange mechanism. We explore literature revealing these interesting behaviors and conclude that computational demonstration of Frenkel's mechanism for MPRHS awaits large systems with careful hardness perturbations.

  • 4 authors
·
Nov 2, 2025

CPKD: Clinical Prior Knowledge-Constrained Diffusion Models for Surgical Phase Recognition in Endoscopic Submucosal Dissection

Gastrointestinal malignancies constitute a leading cause of cancer-related mortality worldwide, with advanced-stage prognosis remaining particularly dismal. Originating as a groundbreaking technique for early gastric cancer treatment, Endoscopic Submucosal Dissection has evolved into a versatile intervention for diverse gastrointestinal lesions. While computer-assisted systems significantly enhance procedural precision and safety in ESD, their clinical adoption faces a critical bottleneck: reliable surgical phase recognition within complex endoscopic workflows. Current state-of-the-art approaches predominantly rely on multi-stage refinement architectures that iteratively optimize temporal predictions. In this paper, we present Clinical Prior Knowledge-Constrained Diffusion (CPKD), a novel generative framework that reimagines phase recognition through denoising diffusion principles while preserving the core iterative refinement philosophy. This architecture progressively reconstructs phase sequences starting from random noise and conditioned on visual-temporal features. To better capture three domain-specific characteristics, including positional priors, boundary ambiguity, and relation dependency, we design a conditional masking strategy. Furthermore, we incorporate clinical prior knowledge into the model training to improve its ability to correct phase logical errors. Comprehensive evaluations on ESD820, Cholec80, and external multi-center demonstrate that our proposed CPKD achieves superior or comparable performance to state-of-the-art approaches, validating the effectiveness of diffusion-based generative paradigms for surgical phase recognition.

  • 7 authors
·
Jul 4, 2025

Lying Is Just a Phase: The Hidden Alignment Transition in Language Model Scaling

Scaling laws predict loss from compute but not how capabilities interact. We measure the coupling between reasoning and truthfulness across 63 base models from 16 families and find a regime change invisible to loss curves: below a family-dependent critical scale N_c, capabilities anticorrelate; above it, they cooperate. N_c approx 3.5B parameters [2.9B, 13.4B] (bootstrap 95% CI), but model size is not the only variable that determines phase. Architecture, data curation, and training recipe each shift N_c independently: curated training eliminated the coupling dip between Qwen generations (0.025 to 0.830 at matched scale), Gemma-4 at 4B achieves coupling 0.871, characteristic of 13B+ standard-trained models, through distillation and architectural innovation, and Phi at 1B matches web-trained coupling at 10B through data curation alone. Width normalization eliminates the anticorrelation across all tested families, supporting an output-projection bottleneck. Internally, 38 of 40 models show zero competing attention heads. A sparse-regression ODE cross-predicts held-out Llama-2 at 5.6% error. The diagnostic requires no model internals -- only public benchmark scores across a model family. The cooperative regime extends to the frontier (r = +0.72, 34 models, 10 labs). Code, data, and an open-source activation-steering tool for any open-weight model are released alongside an interactive dashboard that diagnoses any model's coupling phase, suggests concrete interventions (data curation, width, benchmark rotation), and provides ODE scaling predictions, frontier diagnostics, and eigenstructure analysis: https://zehenlabs.com/cape/.

  • 1 authors
·
May 12

Scalar field theory for (chiral) active Brownian particles: bottom-up derivation revisited

The active Brownian particle (ABP) model is one of the most widely used particle-based models in studies of scalar active fluids. A collection of interacting ABPs is known to exhibit intriguing phenomena that are absent in equilibrium counterparts. A prominent example is spontaneous phase separation, known as motility-induced phase separation (MIPS), which occurs even in the absence of explicit attractive interactions. In parallel, the large-scale behavior of scalar active fluids is often modeled using continuum descriptions, namely, scalar field theories. Such scalar active field theories are usually formulated in a top-down manner, and establishing their connections to particle-based models remains challenging, with these connections not yet fully understood. To advance the microscopic derivation of scalar active field theories, we revisit the connection between ABPs interacting via a two-body potential in two dimensions and scalar field theories that include all possible terms up to fourth order in spatial gradients. Our approach is based on a pressure expansion and the renormalization group (RG) method in the context of singular perturbation theory. The RG method provides a systematic way to eliminate fast variables and identify the dynamics on the slow invariant manifold. Within this framework, scalar field theories can be obtained as RG flow equations. We also apply this method to a chiral variant of the ABP model, the chiral ABP (cABP) model, in which a constant torque biases particle rotation to the left or right. We show that the scalar field theory corresponding to the cABP model contains two ``odd'' terms in addition to those present in the scalar field theory for ABPs. The method developed here may also be useful for deriving hydrodynamic descriptions of other types of active matter systems.

  • 2 authors
·
Sep 30

Complete Synchronization and its Transition in Higher Harmonic Sakaguchi--Kuramoto Oscillators

In heterogeneous networks of coupled oscillators, phase frustration typically prevents the emergence of synchronization in the Sakaguchi--Kuramoto (SK) model. In this study, we propose an analytical framework to overcome this barrier and induce complete synchronization at a specified small coupling value in oscillators governed by phase-frustrated bi-harmonic coupling. We derive an optimal set of natural frequencies that is robust against added noise and correlated with the network degree heterogeneity, along with the parameters involved in the bi-harmonic coupling function that lead to complete synchronization (r = 1). In addition, we find complete synchronization transitions accompanied by hysteresis in scale-free networks, indicating a first-order (discontinuous) phase transition, whereas Erdős--Rényi networks exhibit complete synchronization through a second-order (continuous) phase transition. Furthermore, we use the mean-field approximation in the presence of optimal frequencies to determine the critical coupling strength associated with the synchronization transition in the pure second-harmonic Sakaguchi--Kuramoto model. Here, the obtained optimal natural frequencies scale linearly with the node degree, and the critical coupling strength for the onset of synchronization is derived analytically from the self-consistent equations. In this specific regime, we observe a perfectly ordered two-cluster synchronized state. These findings remain robust for higher-order harmonic coupling schemes, as well as across a diverse range of synthetic and empirical networks, including scale-free, Erdős--Rényi, Zachary Karate Club, and the C.~elegans neural network, demonstrating their general applicability.

  • 5 authors
·
May 20

The interplay of signal-to-noise ratio and variance misspecification in Gaussian mixtures

We study estimation and clustering in Gaussian mixture models under variance misspecification. Observations are generated with true variance σ^2, while the component means are estimated using a likelihood with variance τ^2, yielding a family of mismatched likelihood functions parameterized by the ratio ρ=τ/σ. We show that the interplay between ρ and the signal-to-noise ratio (SNR) induces a sharp phase diagram. Under correct specification (ρ=1), maximum likelihood recovers the true means, independently of the SNR. However, once the model is misspecified, two different regimes emerge. Under under-smoothing (ρ<1), the estimated Gaussian means are displaced from the truth, and in low SNR this discrepancy grows as the SNR decreases: for every fixed ρ<1, the squared error scales as SNR^{-1}. Under over-smoothing (ρ>1), the fitted likelihood blurs the cluster separation, causing distinct component means to collapse towards the overall mixture center once ρ^2 exceeds a threshold of the form 1 + λ,SNR, where λ depends on the geometry of the true means. We further show that the hard assignment objective arises as the limit τto 0 of the same mismatched likelihood family, and derive corresponding low- and high-SNR results for hard-assignment mean estimation and latent-label recovery. Furthermore, in low SNR, Bayes-optimal clustering is close to random guessing, and the hard-assignment target remains far from the true means. These results show that in low-SNR applications, even mild variance misspecification or hard-assignment procedures can induce substantial bias, whereas in high SNR these effects are largely absent.

  • 3 authors
·
May 3

Periodic Weak Spots: Phase Sensitivity from Chunked KV-Cache Compression

Chunked KV-cache compression reduces the memory and attention costs of long-context inference by compressing windows of consecutive tokens into fewer cache entries at a fixed stride. Such compression also introduces a new positional coordinate: a token's phase, or its position relative to compression-window boundaries. We uncover a systematic asymmetry in models using such compression: the same information can be easy to retrieve at one phase and difficult at another. We call this periodic variation in retrieval performance phase sensitivity. In large open-weight models with such compression, long-context retrieval accuracy can differ by up to 40 percentage points across phases, revealing periodic weak spots that average benchmark scores can conceal. To investigate this behavior, we pretrain a family of transformers from scratch across multiple KV-compression designs, reproducing phase sensitivity across the variants. Mechanistic analysis using causal interventions in these models reveals phase specialization: different attention components contribute asymmetrically to retrieving information at different source phases. We further analyze idealized retrieval models, showing how gradient flow dynamics may favor sharp phase specialization. Evaluating models with chunked KV-cache compression thus requires measuring across compression phases: high average accuracy can coexist with systematic positional failures.

Patient-Specific Autoregressive Models for Organ Motion Prediction in Radiotherapy

Radiotherapy often involves a prolonged treatment period. During this time, patients may experience organ motion due to breathing and other physiological factors. Predicting and modeling this motion before treatment is crucial for ensuring precise radiation delivery. However, existing pre-treatment organ motion prediction methods primarily rely on deformation analysis using principal component analysis (PCA), which is highly dependent on registration quality and struggles to capture periodic temporal dynamics for motion modeling.In this paper, we observe that organ motion prediction closely resembles an autoregressive process, a technique widely used in natural language processing (NLP). Autoregressive models predict the next token based on previous inputs, naturally aligning with our objective of predicting future organ motion phases. Building on this insight, we reformulate organ motion prediction as an autoregressive process to better capture patient-specific motion patterns. Specifically, we acquire 4D CT scans for each patient before treatment, with each sequence comprising multiple 3D CT phases. These phases are fed into the autoregressive model to predict future phases based on prior phase motion patterns. We evaluate our method on a real-world test set of 4D CT scans from 50 patients who underwent radiotherapy at our institution and a public dataset containing 4D CT scans from 20 patients (some with multiple scans), totaling over 1,300 3D CT phases. The performance in predicting the motion of the lung and heart surpasses existing benchmarks, demonstrating its effectiveness in capturing motion dynamics from CT images. These results highlight the potential of our method to improve pre-treatment planning in radiotherapy, enabling more precise and adaptive radiation delivery.

  • 4 authors
·
May 17, 2025

From time-series to complex networks: Application to the cerebrovascular flow patterns in atrial fibrillation

A network-based approach is presented to investigate the cerebrovascular flow patterns during atrial fibrillation (AF) with respect to normal sinus rhythm (NSR). AF, the most common cardiac arrhythmia with faster and irregular beating, has been recently and independently associated with the increased risk of dementia. However, the underlying hemodynamic mechanisms relating the two pathologies remain mainly undetermined so far; thus the contribution of modeling and refined statistical tools is valuable. Pressure and flow rate temporal series in NSR and AF are here evaluated along representative cerebral sites (from carotid arteries to capillary brain circulation), exploiting reliable artificially built signals recently obtained from an in silico approach. The complex network analysis evidences, in a synthetic and original way, a dramatic signal variation towards the distal/capillary cerebral regions during AF, which has no counterpart in NSR conditions. At the large artery level, networks obtained from both AF and NSR hemodynamic signals exhibit elongated and chained features, which are typical of pseudo-periodic series. These aspects are almost completely lost towards the microcirculation during AF, where the networks are topologically more circular and present random-like characteristics. As a consequence, all the physiological phenomena at microcerebral level ruled by periodicity - such as regular perfusion, mean pressure per beat, and average nutrient supply at cellular level - can be strongly compromised, since the AF hemodynamic signals assume irregular behaviour and random-like features. Through a powerful approach which is complementary to the classical statistical tools, the present findings further strengthen the potential link between AF hemodynamic and cognitive decline.

  • 3 authors
·
Sep 26, 2017

Body-Reservoir Governance in Repeated Games: Embodied Decision-Making, Dynamic Sentinel Adaptation, and Complexity-Regularized Optimization

Standard game theory explains cooperation in repeated games through conditional strategies such as Tit-for-Tat (TfT), but these require continuous computation that imposes physical costs on embodied agents. We propose a three-layer Body-Reservoir Governance (BRG) architecture: (1) a body reservoir (echo state network) whose d-dimensional state performs implicit inference over interaction history, serving as both decision-maker and anomaly detector, (2) a cognitive filter providing costly strategic tools activated on demand, and (3) a metacognitive governance layer with receptivity parameter αin [0,1]. At full body governance (α=1), closed-loop dynamics satisfy a self-consistency equation: cooperation is expressed as the reservoir's fixed point, not computed. Strategy complexity cost is defined as the KL divergence between the reservoir's state distribution and its habituated baseline. Body governance reduces this cost, with action variance decreasing up to 1600times with dimension d. A dynamic sentinel generates a composite discomfort signal from the reservoir's own state, driving adaptive α(t): near baseline during cooperation, rapidly dropping upon defection to activate cognitive retaliation. Overriding the body incurs thermodynamic cost proportional to internal state distortion. The sentinel achieves the highest payoff across all conditions, outperforming static body governance, TfT, and EMA baselines. A dimension sweep (d in {5,ldots,100}) shows implicit inference scales with bodily richness (23times to 1600times variance reduction), attributable to reservoir dynamics. A phase diagram in (d, τ_{env}) space reveals governance regime transitions near d approx 20. The framework reinterprets cooperation as the minimum-dissipation response of an adapted dynamical system -- emergent from embodied dynamics rather than computed.

  • 1 authors
·
Feb 24

Ferromagnetic ordering in mazelike stripe liquid of a dipolar six-state clock model

We present a comprehensive numerical study of a six-state clock model with a long-range dipolar type interaction. This model is motivated by the ferroelectric orders in the multiferroic hexagonal manganites. At low temperatures, trimerization of local atomic structures leads to six distinct but energetically degenerate structural distortion, which can be modeled by a six-state clock model. Moreover, the atomic displacements in the trimerized state further produce a local electric polarization whose sign depends on whether the clock variable is even or odd. These induced electric dipoles, which can be modeled by emergent Ising degrees of freedom, interact with each other via long-range dipolar interactions. Extensive Monte Carlo simulations are carried out to investigate low temperature phases resulting from the competing interactions. Upon lowering temperature, the system undergoes two Berezinskii-Kosterlitz-Thouless (BKT) transitions, characteristic of the standard six-state clock model in two dimensions. The dipolar interaction between emergent Ising spins induces a first-order transition into a ground state characterized by a three-fold degenerate stripe order. The intermediate phase between the discontinuous and the second BKT transition corresponds to a maze-like hexagonal liquid with short-range stripe ordering. Moreover, this intermediate phase also exhibits an unusual ferromagnetic order with two adjacent clock variables occupying the two types of stripes of the labyrinthine pattern.

  • 3 authors
·
Dec 12, 2024

Preliminary sonification of ENSO using traditional Javanese gamelan scales

Sonification -- the mapping of data to non-speech audio -- offers an underexplored channel for representing complex dynamical systems. We treat El Niño-Southern Oscillation (ENSO), a canonical example of low-dimensional climate chaos, as a test case for culturally-situated sonification evaluated through complex systems diagnostics. Using parameter-mapping sonification of the Niño 3.4 sea surface temperature anomaly index (1870--2024), we encode ENSO variability into two traditional Javanese gamelan pentatonic systems (pelog and slendro) across four composition strategies, then analyze the resulting audio as trajectories in a two-dimensional acoustic phase space. Recurrence-based diagnostics, convex hull geometry, and coupling analysis reveal that the sonification pipeline preserves key dynamical signatures: alternating modes produce the highest trajectory recurrence rates, echoing ENSO's quasi-periodicity; layered polyphonic modes explore the broadest phase space regions; and the two scale families induce qualitatively distinct coupling regimes between spectral brightness and energy -- predominantly anti-phase in pelog but near-independent in slendro. Phase space trajectory analysis provides a rigorous geometric framework for comparing sonification designs within a complex systems context. Perceptual validation remains necessary; we contribute the dynamical systems methodology for evaluating such mappings.

A Comprehensive Perturbative Formalism for Phase Mixing in Perturbed Disks. II. Phase Spirals in an Inhomogeneous Disk Galaxy with a Non-responsive Dark Matter Halo

We develop a linear perturbative formalism to compute the response of an inhomogeneous stellar disk embedded in a non-responsive dark matter halo to perturbations like bars, spiral arms and satellite galaxy encounters. Without self-gravity to reinforce it, the response of a Fourier mode phase mixes away due to an intrinsic spread in the vertical (Omega_z), radial (Omega_r) and azimuthal (Omega_phi) frequencies, giving rise to local phase-space spirals. Collisional diffusion due to scattering of stars by structures like giant molecular clouds causes super-exponential damping of the phase-spiral amplitude. The z-v_z phase-spiral is 1-armed (2-armed) for vertically anti-symmetric (symmetric) bending (breathing) modes. Only transient perturbations with timescales (tau_{P}) comparable to the vertical oscillation period (tau_z sim 1/Omega_z) trigger z-v_z phase-spirals. Each (n,l,m) mode of the response to impulsive (tau_{P}<tau=1/(nOmega_z+lOmega_r+mOmega_phi)) perturbations is power law (sim tau_{P}/tau) suppressed, but that to adiabatic (tau_{P}>tau) perturbations is exponentially weak (sim left[-left(tau_{mathrm{P}/tauright)^alpharight]}) except resonant (tauto infty) modes. Slower (tau_{P}>tau_z) perturbations, e.g., distant encounters with satellite galaxies, induce stronger bending modes. If the Gaia phase-spiral was triggered by a satellite, Sagittarius is the leading contender as it dominates the Solar neighborhood response of the Milky Way disk to satellite encounters. However, survival against collisional damping necessitates that the impact occurred within sim 0.6-0.7 Gyr ago. We discuss how the detailed galactic potential dictates the phase-spiral shape: phase mixing occurs slower and phase-spirals are less wound in the outer disk and in presence of an ambient halo.

  • 3 authors
·
Feb 28, 2023

EndoNet: A Deep Architecture for Recognition Tasks on Laparoscopic Videos

Surgical workflow recognition has numerous potential medical applications, such as the automatic indexing of surgical video databases and the optimization of real-time operating room scheduling, among others. As a result, phase recognition has been studied in the context of several kinds of surgeries, such as cataract, neurological, and laparoscopic surgeries. In the literature, two types of features are typically used to perform this task: visual features and tool usage signals. However, the visual features used are mostly handcrafted. Furthermore, the tool usage signals are usually collected via a manual annotation process or by using additional equipment. In this paper, we propose a novel method for phase recognition that uses a convolutional neural network (CNN) to automatically learn features from cholecystectomy videos and that relies uniquely on visual information. In previous studies, it has been shown that the tool signals can provide valuable information in performing the phase recognition task. Thus, we present a novel CNN architecture, called EndoNet, that is designed to carry out the phase recognition and tool presence detection tasks in a multi-task manner. To the best of our knowledge, this is the first work proposing to use a CNN for multiple recognition tasks on laparoscopic videos. Extensive experimental comparisons to other methods show that EndoNet yields state-of-the-art results for both tasks.

  • 6 authors
·
Feb 9, 2016

Activated coarsening of motility-induced phase separation in random environments

Self-propelled particles that only repel one another can still separate into a dense and a dilute phase, a process known as motility-induced phase separation (MIPS). In a clean system the domains coarsen like any conserved mixture: domains grow as ell(t)sim t^{1/3}. Living and synthetic swimmers, however, move through rough, porous, or patterned surroundings. Using large-scale simulations of active Brownian particles, we ask how frozen heterogeneity changes MIPS coarsening. We introduce disorder in two ways, as a quenched random force field acting on particle positions and as a quenched random torque field acting on their orientations. Both destroy Lifshitz-Slyozov growth. A transient power law with a disorder-dependent exponent gives way to activated dynamics in which the effective dynamic exponent grows without bound and domains grow at most logarithmically. The crossover obeys the scaling form known from the random-field Ising model, and the domain morphology depends on disorder strength, so superuniversality fails. The two kinds of disorder act through different mechanisms. Random forces trap particles in the sinks of a random drift field once the drift beats self-propulsion. Random torques act as a sign-random, quenched chirality that erodes persistence and lowers the local Péclet number toward its critical value. Our results show that quenched disorder is a relevant perturbation for the kinetics of active phase separation and connect MIPS coarsening to the physics of pinned interfaces in disordered magnets.

  • 2 authors
·
Oct 2

Dara: Automated multiple-hypothesis phase identification and refinement from powder X-ray diffraction

Powder X-ray diffraction (XRD) is a foundational technique for characterizing crystalline materials. However, the reliable interpretation of XRD patterns, particularly in multiphase systems, remains a manual and expertise-demanding task. As a characterization method that only provides structural information, multiple reference phases can often be fit to a single pattern, leading to potential misinterpretation when alternative solutions are overlooked. To ease humans' efforts and address the challenge, we introduce Dara (Data-driven Automated Rietveld Analysis), a framework designed to automate the robust identification and refinement of multiple phases from powder XRD data. Dara performs an exhaustive tree search over all plausible phase combinations within a given chemical space and validates each hypothesis using a robust Rietveld refinement routine (BGMN). Key features include structural database filtering, automatic clustering of isostructural phases during tree expansion, peak-matching-based scoring to identify promising phases for refinement. When ambiguity exists, Dara generates multiple hypothesis which can then be decided between by human experts or with further characteriztion tools. By enhancing the reliability and accuracy of phase identification, Dara enables scalable analysis of realistic complex XRD patterns and provides a foundation for integration into multimodal characterization workflows, moving toward fully self-driving materials discovery.

  • 5 authors
·
Dec 3, 2025

Stabilizing Temporal Inference Dynamics for Online Surgical Phase Recognition

Online Surgical Phase Recognition (SPR) models can reach high frame-wise accuracy, yet their predictions often lack temporal stability, fragmenting workflow understanding and reducing the reliability of downstream assistance. We show that this instability is not random noise but arises from two mechanisms: early misclassifications corrupt temporal feature states and propagate forward to form error cascades, and phase transitions follow evidence-accumulation dynamics whereas most online SPR systems rely on memoryless frame-wise decisions, making them sensitive to transient confidence fluctuations. We propose a unified Train-Inference-Evaluation framework that explicitly stabilizes temporal inference dynamics using model-agnostic, plug-and-play components. For training, the Temporal Error-Cascade (TEC) loss suppresses error onset and mitigates forward error propagation by stabilizing temporal feature evolution. For inference, the Evidence-Gated Transition Predictor (EGTP) enforces evidence-driven state transitions, allowing phase changes only when accumulated evidence exceeds a confidence boundary. For evaluation, we introduce the Temporal Fragmentation Index (TFI), a reliability-aware metric that quantifies instability-induced temporal disagreement beyond conventional frame-wise and token-based measures. Experiments on Cholec80 and AutoLaparo across three representative backbones show that the proposed framework substantially improves temporal stability and reduces prediction fragmentation, while maintaining or modestly improving frame-wise performance.