#01Nov 10, 2026
cs.LG
When Does the Real Wiring Win? Testing connectome structure-function claims against unmeasured physiology
Yeyuan Liu
Connectome-constrained models are often used to argue that a measured wiring diagram outperforms shuffled or rewired wiring, and hence that structure shapes function. Such comparisons can confound wiring with how the models are tuned: a connectome fixes who connects to whom, not the excitability, gains or plasticity rates the model also needs, and modellers often tune these until the real-wiring model works. We separate three estimands: physiology tuned on the real wiring and transferred to nulls (P1), each wiring tuned on its own (P2), and P2 restricted to physiology consistent with independent data (P3). The biases involved are known in machine learning (under-tuned baselines, inherited weights, winner's curse); we measure what they do to biological conclusions, using synthetic ground truth, placebo nulls and three Drosophila circuit models. Some claims survive every protocol we test: segregated reward and punishment dopamine improves learning, and head-direction topography is required for a persistent bump. Others do not. In the mushroom body, the real Kenyon-cell output wiring beats a cross-subtype identity shuffle by 0.09 under P1 and P2 but loses to it by 0.09 under P3 (95% CIs exclude zero; held-out runs confirm). The verdict is set by the share of alpha'beta' cells among active Kenyon cells, which P1 selects low; at the share implied by imaging (about 44%) the real-wiring model fails to learn, exposing a model inadequacy rather than a deficit of the fly's wiring. In flyvis, P1 penalises a mirrored connectome, which has a constructed solution within 0.07 (median) of the real error, more than a spatially shuffled one in 50 of 50 members; the ranking survives ten-fold longer retraining but depends on the checkpoint at fifty-fold. A credible structural claim needs matched optimisation, data-constrained physiology and a model that still works there.
#02Nov 10, 2026
stat.ME
One Curve, Different Weights: AUC, the Brier Score, Decision-Weighted AUC, and the Policy Youden Index
Yegor Baranovski
AUC and the Brier score are standard summaries of a binary risk score, yet they can rank models differently. We introduce a weighted AUC, AUC$_π$, which weights each pair of observations by how differently a decision maker with probability of acting $π$ treats them. We show that all three are built on weighted averages of one curve, the Youden index $J(t) = \mathrm{TPR}(t) - \mathrm{FPR}(t)$ across cutoffs $t$, and that the averages differ in the weights they put on the cutoffs. Each weights a cutoff by how much something rises across it: for AUC, the distribution of all scores; for the Brier score, the true probability $\mathbb{E}[Y \mid S]$; for AUC$_π$, the decision maker's probability of acting. Up to normalization, AUC$_π$ is the Brier skill score of the ideal forecast with its weight moved to the cutoffs the decision maker cares about. We also show that weighting pairs by $|π(s) - π(s')|$ is, up to scale, the only pair weight fixed in advance that makes a pair-weighted AUC an average of the Youden curve for every score distribution. As a ranking measure, AUC weights every model the same way. Hand (2009) shows that it can also be read as an average over cost thresholds, and in that reading each model weights the thresholds differently. The numerator of AUC$_π$, which we call the policy Youden index, is the expected share of class 1 a fixed policy acts on minus the expected share of class 0. It judges every model by the same policy and so avoids this; the full ratio AUC$_π$ does not.
#03Nov 10, 2026
cs.SD
Exploring Post-Hoc Disentanglement of Audio Foundation Models for Music Similarity
Lucas de Souza Brandão, Gabriel da Costa Merlin, Diego Furtado Silva
Audio foundation models like CLAP, MuQ, and MERT excel at capturing general musical similarity. On the other hand, their entangled latent spaces limit interpretability and fine-grained attribute control. Conditional Similarity Networks (CSN) address this by pairing a backbone representation model with learned masks that gate the embedding space into attribute-specific subspaces. However, existing methods train the backbone from scratch, rather than leveraging pretrained foundation models. We instead present a systematic study of post-hoc disentanglement, adapting CSN to gate frozen pretrained embeddings. We evaluate adding trainable parameters to adapt the embedding under different masking and pooling regimes across two datasets. Our findings show that minimal adaptation capacity is sufficient for post-hoc gating to improve both attribute-specific disentanglement and overall retrieval performance, while pooling, masking, and depth choices yield limited additional gains.
#04Nov 10, 2026
cs.LG
A Margin Perspective on LoRA: Robustness to Catastrophic Forgetting and Adapter Merging (MaLoRA)
Ziqing Xu, Hancheng Min, Lachlan Ewen MacDonald and 4 more
Low-rank adaptation (LoRA) is the de facto method for parameter-efficient fine-tuning of large neural networks, achieving strong task adaptation with minimal trainable parameters and low optimization cost. Beyond this efficiency, practitioners have observed two striking properties: \textit{robustness to catastrophic forgetting} and the ability to \textit{merge independently trained adapters} into a single model that performs competitively across multiple tasks. These properties are central to continual and multi-task learning, yet remain poorly understood. In this work, we provide a theoretical explanation through a unified \textit{margin-based perspective}. We analyze LoRA in multiclass linear classification under a near-orthogonal task regime with $\ell_2$-regularization, and characterize the optimal LoRA adapter across regularization regimes. Our analysis shows that, in an intermediate regime of regularization parameters, the optimal adapter aligns with the \emph{max-margin solution} on the fine-tuning data. Building on this characterization, we derive two key consequences. First, we obtain closed-form expressions for the margins on pre-training and fine-tuning data, revealing a precise margin trade-off: the regularization parameter controls the balance between retention and adaptation. Second, we analyze adapter merging, proving that merged models achieve positive margin on each task and deriving optimal mixing coefficients that balance margins across tasks and maximize the margin over their union. These results lead to a simple, training-free merging rule, which we term \textit{margin-based LoRA merging} (MaLoRA). Experiments on modern architectures and real datasets validate our theoretical predictions, showing that MaLoRA matches or outperforms several adapter-merging baselines across a range of vision and language classification tasks.
#05Nov 10, 2026
cs.LG
DnNP: Denoising Input Uncertainty in Neural Processes
Fatemeh Tohidian, Chengzhi Shi, Soomi Lee and 4 more
Neural Processes (NPs) are flexible meta-learning models capable of uncertainty quantification across diverse applications. However, the standard NP framework assumes access to noise-free inputs. This is unrealistic in many practical settings, where sensor noise or measurement errors are unavoidable. This discrepancy between model assumptions and real-world data can significantly degrade prediction quality and uncertainty estimates. We introduce Denoising Neural Processes (DnNPs), a principled extension of the NP framework that explicitly models input uncertainty. We train DnNPs via variational inference. DnNPs jointly learn to denoise corrupted inputs and perform meta-learning, making them robust to noisy training data. We demonstrate DnNPs' effectiveness on both synthetic and real-world datasets, showing consistent improvements in prediction and uncertainty quantification compared to standard NPs. On PM2.5 spatial interpolation from real-world air quality sensors, DnNP reduces RMSE by up to 30% and NLL by up to 73% relative to standard NPs. We also provide theoretical grounding: we show that the Bayes-optimal predictor under noisy inputs belongs to the DnNP model class, and that plug-in models with fixed observation variance incur an irreducible KL divergence gap that DnNP provably avoids.