The interaction of a protein with its environment can be understood and controlled via its 3D structure. Experimental methods for protein structure determination, such as X-ray crystallography or cryogenic electron microscopy, shed light on biological processes but introduce challenging inverse problems. Learning-based approaches have emerged as accurate and efficient methods to solve these inverse problems for 3D structure determination, but are specialized for a predefined type of measurement. Here, we introduce a versatile framework to turn raw biophysical measurements of varying types into 3D atomic models. Our method combines a physics-based forward model of the measurement process with a pretrained generative model providing a task-agnostic, data-driven prior. Our method outperforms posterior sampling baselines on both linear and non-linear inverse problems. In particular, it is the first diffusion-based method for refining atomic models from cryo-EM density maps.

Despite their ability to represent highly expressive functions, deep learning models seem to find simple solutions that generalize surprisingly well. Spectral bias -- the tendency of neural networks to prioritize learning low frequency functions -- is one possible explanation for this phenomenon, but so far spectral bias has primarily been observed in theoretical models and simplified experiments. In this work, we propose methodologies for measuring spectral bias in modern image classification networks on CIFAR-10 and ImageNet. We find that these networks indeed exhibit spectral bias, and that interventions that improve test accuracy on CIFAR-10 tend to produce learned functions that have higher frequencies overall but lower frequencies in the vicinity of examples from each class. This trend holds across variation in training time, model architecture, number of training examples, data augmentation, and self-distillation. We also explore the connections between function frequency and image frequency and find that spectral bias is sensitive to the low frequencies prevalent in natural images. On ImageNet, we find that learned function frequency also varies with internal class diversity, with higher frequencies on more diverse classes. Our work enables measuring and ultimately influencing the spectral behavior of neural networks used for image classification, and is a step towards understanding why deep models generalize well.