我们介绍了Shennong，一个Python工具箱和命令行实用程序，用于语音功能提取。它实现了广泛的既定现实算法状态，包括诸如熔融频率纤维滤波器或预测的线性滤波器，预先训练的神经网络，音高估计器以及扬声器归一化方法和后处理算法的谱时间滤波器。 Shennong是一种开源，易于使用，可靠和可扩展的框架。 Python的使用使得集成到其他语音建模和机器学习工具方便。它旨在替换或补充几种异质软件，例如Kaldi或Praat。在描述神农软件架构，其核心组件和实现的算法之后，本文说明了三种应用的使用：语音特征在手机辨别任务上的性能进行比较，作为语音函数的声音轨道长度归一化模型的分析用于训练的持续时间和各种噪声条件下的音高估计算法的比较。

Making histopathology image classifiers robust to a wide range of real-world variability is a challenging task. Here, we describe a candidate deep learning solution for the Mitosis Domain Generalization Challenge 2022 (MIDOG) to address the problem of generalization for mitosis detection in images of hematoxylin-eosin-stained histology slides under high variability (scanner, tissue type and species variability). Our approach consists in training a rotation-invariant deep learning model using aggressive data augmentation with a training set enriched with hard negative examples and automatically selected negative examples from the unlabeled part of the challenge dataset. To optimize the performance of our models, we investigated a hard negative mining regime search procedure that lead us to train our best model using a subset of image patches representing 19.6% of our training partition of the challenge dataset. Our candidate model ensemble achieved a F1-score of .697 on the final test set after automated evaluation on the challenge platform, achieving the third best overall score in the MIDOG 2022 Challenge.

Methods based on ordinary differential equations (ODEs) are widely used to build generative models of time-series. In addition to high computational overhead due to explicitly computing hidden states recurrence, existing ODE-based models fall short in learning sequence data with sharp transitions - common in many real-world systems - due to numerical challenges during optimization. In this work, we propose LS4, a generative model for sequences with latent variables evolving according to a state space ODE to increase modeling capacity. Inspired by recent deep state space models (S4), we achieve speedups by leveraging a convolutional representation of LS4 which bypasses the explicit evaluation of hidden states. We show that LS4 significantly outperforms previous continuous-time generative models in terms of marginal distribution, classification, and prediction scores on real-world datasets in the Monash Forecasting Repository, and is capable of modeling highly stochastic data with sharp temporal transitions. LS4 sets state-of-the-art for continuous-time latent generative models, with significant improvement of mean squared error and tighter variational lower bounds on irregularly-sampled datasets, while also being x100 faster than other baselines on long sequences.

As more and more conversational and translation systems are deployed in production, it is essential to implement and to develop effective control mechanisms guaranteeing their proper functioning and security. An essential component to ensure safe system behavior is out-of-distribution (OOD) detection, which aims at detecting whether an input sample is statistically far from the training distribution. Although OOD detection is a widely covered topic in classification tasks, it has received much less attention in text generation. This paper addresses the problem of OOD detection for machine translation and dialog generation from an operational perspective. Our contributions include: (i) RAINPROOF a Relative informAItioN Projection ODD detection framework; and (ii) a more operational evaluation setting for OOD detection. Surprisingly, we find that OOD detection is not necessarily aligned with task-specific measures. The OOD detector may filter out samples that are well processed by the model and keep samples that are not, leading to weaker performance. Our results show that RAINPROOF breaks this curse and achieve good results in OOD detection while increasing performance.

Underwater images are altered by the physical characteristics of the medium through which light rays pass before reaching the optical sensor. Scattering and strong wavelength-dependent absorption significantly modify the captured colors depending on the distance of observed elements to the image plane. In this paper, we aim to recover the original colors of the scene as if the water had no effect on them. We propose two novel methods that rely on different sets of inputs. The first assumes that pixel intensities in the restored image are normally distributed within each color channel, leading to an alternative optimization of the well-known \textit{Sea-thru} method which acts on single images and their distance maps. We additionally introduce SUCRe, a new method that further exploits the scene's 3D Structure for Underwater Color Restoration. By following points in multiple images and tracking their intensities at different distances to the sensor we constrain the optimization of the image formation model parameters. When compared to similar existing approaches, SUCRe provides clear improvements in a variety of scenarios ranging from natural light to deep-sea environments. The code for both approaches is publicly available at https://github.com/clementinboittiaux/sucre .

Vulnerability to adversarial attacks is a well-known weakness of Deep Neural Networks. While most of the studies focus on natural images with standardized benchmarks like ImageNet and CIFAR, little research has considered real world applications, in particular in the medical domain. Our research shows that, contrary to previous claims, robustness of chest x-ray classification is much harder to evaluate and leads to very different assessments based on the dataset, the architecture and robustness metric. We argue that previous studies did not take into account the peculiarity of medical diagnosis, like the co-occurrence of diseases, the disagreement of labellers (domain experts), the threat model of the attacks and the risk implications for each successful attack. In this paper, we discuss the methodological foundations, review the pitfalls and best practices, and suggest new methodological considerations for evaluating the robustness of chest xray classification models. Our evaluation on 3 datasets, 7 models, and 18 diseases is the largest evaluation of robustness of chest x-ray classification models.

We introduce submodel co-training, a regularization method related to co-training, self-distillation and stochastic depth. Given a neural network to be trained, for each sample we implicitly instantiate two altered networks, ``submodels'', with stochastic depth: we activate only a subset of the layers. Each network serves as a soft teacher to the other, by providing a loss that complements the regular loss provided by the one-hot label. Our approach, dubbed cosub, uses a single set of weights, and does not involve a pre-trained external model or temporal averaging. Experimentally, we show that submodel co-training is effective to train backbones for recognition tasks such as image classification and semantic segmentation. Our approach is compatible with multiple architectures, including RegNet, ViT, PiT, XCiT, Swin and ConvNext. Our training strategy improves their results in comparable settings. For instance, a ViT-B pretrained with cosub on ImageNet-21k obtains 87.4% top-1 acc. @448 on ImageNet-val.

Named Entity Recognition (NER) involves the identification and classification of named entities in unstructured text into predefined classes. NER in languages with limited resources, like French, is still an open problem due to the lack of large, robust, labelled datasets. In this paper, we propose a transformer-based NER approach for French using adversarial adaptation to similar domain or general corpora for improved feature extraction and better generalization. We evaluate our approach on three labelled datasets and show that our adaptation framework outperforms the corresponding non-adaptive models for various combinations of transformer models, source datasets and target corpora.

White matter bundle segmentation is a cornerstone of modern tractography to study the brain's structural connectivity in domains such as neurological disorders, neurosurgery, and aging. In this study, we present FIESTA (FIber gEneration and bundle Segmentation in Tractography using Autoencoders), a reliable and robust, fully automated, and easily semi-automatically calibrated pipeline based on deep autoencoders that can dissect and fully populate WM bundles. Our framework allows the transition from one anatomical bundle definition to another with marginal calibrating time. This pipeline is built upon FINTA, CINTA, and GESTA methods that demonstrated how autoencoders can be used successfully for streamline filtering, bundling, and streamline generation in tractography. Our proposed method improves bundling coverage by recovering hard-to-track bundles with generative sampling through the latent space seeding of the subject bundle and the atlas bundle. A latent space of streamlines is learned using autoencoder-based modeling combined with contrastive learning. Using an atlas of bundles in standard space (MNI), our proposed method segments new tractograms using the autoencoder latent distance between each tractogram streamline and its closest neighbor bundle in the atlas of bundles. Intra-subject bundle reliability is improved by recovering hard-to-track streamlines, using the autoencoder to generate new streamlines that increase each bundle's spatial coverage while remaining anatomically meaningful. Results show that our method is more reliable than state-of-the-art automated virtual dissection methods such as RecoBundles, RecoBundlesX, TractSeg, White Matter Analysis and XTRACT. Overall, these results show that our framework improves the practicality and usability of current state-of-the-art bundling framework

We present a Quality-Diversity benchmark suite for Deep Neuroevolution in Reinforcement Learning domains for robot control. The suite includes the definition of tasks, environments, behavioral descriptors, and fitness. We specify different benchmarks based on the complexity of both the task and the agent controlled by a deep neural network. The benchmark uses standard Quality-Diversity metrics, including coverage, QD-score, maximum fitness, and an archive profile metric to quantify the relation between coverage and fitness. We also present how to quantify the robustness of the solutions with respect to environmental stochasticity by introducing corrected versions of the same metrics. We believe that our benchmark is a valuable tool for the community to compare and improve their findings. The source code is available online: https://github.com/adaptive-intelligent-robotics/QDax