High-dimensional sequence transduction

We investigate the problem of transforming an input sequence into a high-dimensional output sequence in order to transcribe polyphonic audio music into symbolic notation. We introduce a probabilistic model based on a recurrent neural network that is able to learn realistic output distributions given the input and we devise an efficient algorithm to search for the global mode of that distribution. The resulting method produces musically plausible transcriptions even under high levels of noise and drastically outperforms previous state-of-the-art approaches on five datasets of synthesized sounds and real recordings, approximately halving the test error rate

Imagerie de synthèse en microscopie tunnel (STM) intrusive

Microscopie à effet tunnel -- Contexte d'utilisation -- Intérêt de la modélisation STM -- Première images STM modélisées -- Évolution des approches numériques -- Importance de la composition chimique -- Objectifs -- Vue d'ensemble -- Méthode des liaisons fortes -- Méthode de Hückel étendu -- Fonctions de base -- Formation des matrices -- Élargissement des pics -- Diagonalisation -- Méthode directe -- Méthode itérative -- Courant tunnel -- Méthode de Bardeen -- Facteurs de Fermi -- Calcul de Mst -- Approximation de Tersoff-Hamann -- Mise à jour d'une image -- Validation -- Qualité de l'image -- Performances -- Mode instrusif -- Taille du système

Modeling High-Dimensional Audio Sequences with Recurrent Neural Networks

Cette thèse étudie des modèles de séquences de haute dimension basés sur des réseaux de neurones récurrents (RNN) et leur application à la musique et à la parole. Bien qu'en principe les RNN puissent représenter les dépendances à long terme et la dynamique temporelle complexe propres aux séquences d'intérêt comme la vidéo, l'audio et la langue naturelle, ceux-ci n'ont pas été utilisés à leur plein potentiel depuis leur introduction par Rumelhart et al. (1986a) en raison de la difficulté de les entraîner efficacement par descente de gradient. Récemment, l'application fructueuse de l'optimisation Hessian-free et d'autres techniques d'entraînement avancées ont entraîné la recrudescence de leur utilisation dans plusieurs systèmes de l'état de l'art. Le travail de cette thèse prend part à ce développement. L'idée centrale consiste à exploiter la flexibilité des RNN pour apprendre une description probabiliste de séquences de symboles, c'est-à-dire une information de haut niveau associée aux signaux observés, qui en retour pourra servir d'à priori pour améliorer la précision de la recherche d'information. Par exemple, en modélisant l'évolution de groupes de notes dans la musique polyphonique, d'accords dans une progression harmonique, de phonèmes dans un énoncé oral ou encore de sources individuelles dans un mélange audio, nous pouvons améliorer significativement les méthodes de transcription polyphonique, de reconnaissance d'accords, de reconnaissance de la parole et de séparation de sources audio respectivement. L'application pratique de nos modèles à ces tâches est détaillée dans les quatre derniers articles présentés dans cette thèse. Dans le premier article, nous remplaçons la couche de sortie d'un RNN par des machines de Boltzmann restreintes conditionnelles pour décrire des distributions de sortie multimodales beaucoup plus riches. Dans le deuxième article, nous évaluons et proposons des méthodes avancées pour entraîner les RNN. Dans les quatre derniers articles, nous examinons différentes façons de combiner nos modèles symboliques à des réseaux profonds et à la factorisation matricielle non-négative, notamment par des produits d'experts, des architectures entrée/sortie et des cadres génératifs généralisant les modèles de Markov cachés. Nous proposons et analysons également des méthodes d'inférence efficaces pour ces modèles, telles la recherche vorace chronologique, la recherche en faisceau à haute dimension, la recherche en faisceau élagué et la descente de gradient. Finalement, nous abordons les questions de l'étiquette biaisée, du maître imposant, du lissage temporel, de la régularisation et du pré-entraînement.This thesis studies models of high-dimensional sequences based on recurrent neural networks (RNNs) and their application to music and speech. While in principle RNNs can represent the long-term dependencies and complex temporal dynamics present in real-world sequences such as video, audio and natural language, they have not been used to their full potential since their introduction by Rumelhart et al. (1986a) due to the difficulty to train them efficiently by gradient-based optimization. In recent years, the successful application of Hessian-free optimization and other advanced training techniques motivated an increase of their use in many state-of-the-art systems. The work of this thesis is part of this development. The main idea is to exploit the power of RNNs to learn a probabilistic description of sequences of symbols, i.e. high-level information associated with observed signals, that in turn can be used as a prior to improve the accuracy of information retrieval. For example, by modeling the evolution of note patterns in polyphonic music, chords in a harmonic progression, phones in a spoken utterance, or individual sources in an audio mixture, we can improve significantly the accuracy of polyphonic transcription, chord recognition, speech recognition and audio source separation respectively. The practical application of our models to these tasks is detailed in the last four articles presented in this thesis. In the first article, we replace the output layer of an RNN with conditional restricted Boltzmann machines to describe much richer multimodal output distributions. In the second article, we review and develop advanced techniques to train RNNs. In the last four articles, we explore various ways to combine our symbolic models with deep networks and non-negative matrix factorization algorithms, namely using products of experts, input/output architectures, and generative frameworks that generalize hidden Markov models. We also propose and analyze efficient inference procedures for those models, such as greedy chronological search, high-dimensional beam search, dynamic programming-like pruned beam search and gradient descent. Finally, we explore issues such as label bias, teacher forcing, temporal smoothing, regularization and pre-training

A Hybrid Recurrent Neural Network For Music Transcription

We investigate the problem of incorporating higher-level symbolic score-like information into Automatic Music Transcription (AMT) systems to improve their performance. We use recurrent neural networks (RNNs) and their variants as music language models (MLMs) and present a generative architecture for combining these models with predictions from a frame level acoustic classifier. We also compare different neural network architectures for acoustic modeling. The proposed model computes a distribution over possible output sequences given the acoustic input signal and we present an algorithm for performing a global search for good candidate transcriptions. The performance of the proposed model is evaluated on piano music from the MAPS dataset and we observe that the proposed model consistently outperforms existing transcription methods

Deep Self-Taught Learning for Handwritten Character Recognition

Recent theoretical and empirical work in statistical machine learning has demonstrated the importance of learning algorithms for deep architectures, i.e., function classes obtained by composing multiple non-linear transformations. Self-taught learning (exploiting unlabeled examples or examples from other distributions) has already been applied to deep learners, but mostly to show the advantage of unlabeled examples. Here we explore the advantage brought by {\em out-of-distribution examples}. For this purpose we developed a powerful generator of stochastic variations and noise processes for character images, including not only affine transformations but also slant, local elastic deformations, changes in thickness, background images, grey level changes, contrast, occlusion, and various types of noise. The out-of-distribution examples are obtained from these highly distorted images or by including examples of object classes different from those in the target test set. We show that {\em deep learners benefit more from out-of-distribution examples than a corresponding shallow learner}, at least in the area of handwritten character recognition. In fact, we show that they beat previously published results and reach human-level performance on both handwritten digit classification and 62-class handwritten character recognition

EmoNets: Multimodal deep learning approaches for emotion recognition in video

The task of the emotion recognition in the wild (EmotiW) Challenge is to assign one of seven emotions to short video clips extracted from Hollywood style movies. The videos depict acted-out emotions under realistic conditions with a large degree of variation in attributes such as pose and illumination, making it worthwhile to explore approaches which consider combinations of features from multiple modalities for label assignment. In this paper we present our approach to learning several specialist models using deep learning techniques, each focusing on one modality. Among these are a convolutional neural network, focusing on capturing visual information in detected faces, a deep belief net focusing on the representation of the audio stream, a K-Means based "bag-of-mouths" model, which extracts visual features around the mouth region and a relational autoencoder, which addresses spatio-temporal aspects of videos. We explore multiple methods for the combination of cues from these modalities into one common classifier. This achieves a considerably greater accuracy than predictions from our strongest single-modality classifier. Our method was the winning submission in the 2013 EmotiW challenge and achieved a test set accuracy of 47.67% on the 2014 dataset

Active-site protein dynamics and solvent accessibility in native<i>Achromobacter cycloclastes</i>copper nitrite reductase

Microbial nitrite reductases are denitrifying enzymes that are a major component of the global nitrogen cycle. Multiple structures measured from one crystal (MSOX data) of copper nitrite reductase at 240 K, together with molecular-dynamics simulations, have revealed protein dynamics at the type 2 copper site that are significant for its catalytic properties and for the entry and exit of solvent or ligands to and from the active site. Molecular-dynamics simulations were performed using different protonation states of the key catalytic residues (AspCATand HisCAT) involved in the nitrite-reduction mechanism of this enzyme. Taken together, the crystal structures and simulations show that the AspCATprotonation state strongly influences the active-site solvent accessibility, while the dynamics of the active-site `capping residue' (IleCAT), a determinant of ligand binding, are influenced both by temperature and by the protonation state of AspCAT. A previously unobserved conformation of IleCATis seen in the elevated temperature series compared with 100 K structures. DFT calculations also show that the loss of a bound water ligand at the active site during the MSOX series is consistent with reduction of the type 2 Cu atom.</jats:p