New tools evaluate and optimize conditional sequence models in bioinformatics.
arXiv research
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We present a class of models that, via a simple construction, enables exact, incremental, non-parametric, polynomial-time, Bayesian inference of conditional measures. The approach relies upon creating a sequence of covers on the conditioning variable and maintaining a different model for each set within a cover. Infere…
Understanding optimal prompts for binary sequence predictors is challenging.
There has been considerable advance in understanding the properties of sparse regularization procedures in high-dimensional models. In time series context, it is mostly restricted to Gaussian autoregressions or mixing sequences. We study oracle properties of LASSO estimation of weakly sparse vector-autoregressive model…
Prediction of future states of the environment and interacting agents is a key competence required for autonomous agents to operate successfully in the real world. Prior work for structured sequence prediction based on latent variable models imposes a uni-modal standard Gaussian prior on the latent variables. This indu…
Improved incremental sequence classification with temporal consistency.
In this paper, we propose a novel neural network model called RNN Encoder-Decoder that consists of two recurrent neural networks (RNN). One RNN encodes a sequence of symbols into a fixed-length vector representation, and the other decodes the representation into another sequence of symbols. The encoder and decoder of t…
ProGen models protein sequences for synthetic biology.
Equivalent condition found for q-holonomic sequences.
The paper examines conditions for compactness in sequences of warped product length spaces.
This paper proposes an EM approach to reduce inference latency in NAR sequence generation.
We study virtual isotopy sequences with classical initial and final diagrams, asking when such a sequence can be changed into a classical isotopy sequence by replacing virtual crossings with classical crossings. An example of a sequence for which no such virtual crossing realization exists is given. A conjecture on con…
We propose a conditional non-autoregressive neural sequence model based on iterative refinement. The proposed model is designed based on the principles of latent variable models and denoising autoencoders, and is generally applicable to any sequence generation task. We extensively evaluate the proposed model on machine…
Transformers can simulate MLE for Bayesian network sequences.
In this paper, we compare different types of Recurrent Neural Network (RNN) Encoder-Decoders in anomaly detection viewpoint. We focused on finding the model that can learn the same data more effectively. We compared multiple models under the same conditions, such as the number of parameters, optimizer, and learning rat…
For a sequence of nonnegative random variables, we provide simple necessary and sufficient conditions to ensure that each sequence of its forward convex combinations converges in probability to the same limit. These conditions correspond to an essentially measure-free version of the notion of uniform integrability.
We present a novel model architecture which leverages deep learning tools to perform exact Bayesian inference on sets of high dimensional, complex observations. Our model is provably exchangeable, meaning that the joint distribution over observations is invariant under permutation: this property lies at the heart of Ba…
In order to alleviate data sparsity and overfitting problems in maximum likelihood estimation (MLE) for sequence prediction tasks, we propose the Generative Bridging Network (GBN), in which a novel bridge module is introduced to assist the training of the sequence prediction model (the generator network). Unlike MLE di…
We investigate the problem of modeling symbolic sequences of polyphonic music in a completely general piano-roll representation. We introduce a probabilistic model based on distribution estimators conditioned on a recurrent neural network that is able to discover temporal dependencies in high-dimensional sequences. Our…
Conditional COT-GAN predicts sequences using past data and kernel smoothing.
Anticipatory model generates music with control over events.
Deep conditional generative models are developed to simultaneously learn the temporal dependencies of multiple sequences. The model is designed by introducing a three-way weight tensor to capture the multiplicative interactions between side information and sequences. The proposed model builds on the Temporal Sigmoid Be…
Multistep traffic forecasting on road networks is a crucial task in successful intelligent transportation system applications. To capture the complex non-stationary temporal dynamics and spatial dependency in multistep traffic-condition prediction, we propose a novel deep learning framework named attention graph convol…
FIGARO generates symbolic music with fine-grained control.
The paper extends sequences while preserving statistical properties using a mixture model.
Researchers develop flexible kernels for biological sequences with guaranteed reliability.
We introduce a quantitative condition on orbits of dynamical systems which measures their aperiodicity. We show the existence of sequences in the Bernoulli-shift and geodesics on closed hyperbolic manifolds which are as aperiodic as possible with respect to this condition.
AutoGraph uses transformers to efficiently generate graphs as sequences.
We present Optimal Completion Distillation (OCD), a training procedure for optimizing sequence to sequence models based on edit distance. OCD is efficient, has no hyper-parameters of its own, and does not require pretraining or joint optimization with conditional log-likelihood. Given a partial sequence generated by th…
Set-Sequence model learns cross-sectional dynamics directly from time series data.
Alternative sampling method for autoregressive models using Langevin dynamics.
One of the basic problems in studying topological structures of deformation spaces for Kleinian groups is to find a criterion to distinguish convergent sequences from divergent sequences. In this paper, we shall give a sufficient condition for sequences of Kleinian groups isomorphic to surface groups to diverge in the …
Sparse Transformers can approximate dense Transformers with only O(n) connections.
The paper establishes conditions for optimal sampling configurations on complex manifolds.
Prediction suffix trees (PST) provide an effective tool for sequence modelling and prediction. Current prediction techniques for PSTs rely on exact matching between the suffix of the current sequence and the previously observed sequence. We present a provably correct algorithm for learning a PST with approximate suffix…
Conditional Random Fields (CRF) are frequently applied for labeling and segmenting sequence data. Morency et al. (2007) introduced hidden state variables in a labeled CRF structure in order to model the latent dynamics within class labels, thus improving the labeling performance. Such a model is known as Latent-Dynamic…
Model learns association between text and speech without paired data.
Given a sequential learning algorithm and a target model, sequential machine teaching aims to find the shortest training sequence to drive the learning algorithm to the target model. We present the first principled way to find such shortest training sequences. Our key insight is to formulate sequential machine teaching…
Tensor networks are a powerful modeling framework developed for computational many-body physics, which have only recently been applied within machine learning. In this work we utilize a uniform matrix product state (u-MPS) model for probabilistic modeling of sequence data. We first show that u-MPS enable sequence-level…
Strong stability of ergodic iterations proven without ergodic driving sequence.
Generative Distribution Embeddings learn multiscale representations of distributions.
Recurrent Neural Networks (RNNs) with attention mechanisms have obtained state-of-the-art results for many sequence processing tasks. Most of these models use a simple form of encoder with attention that looks over the entire sequence and assigns a weight to each token independently. We present a mechanism for focusing…
Investigates neural TTS systems for Japanese and English.
Events in the world may be caused by other, unobserved events. We consider sequences of events in continuous time. Given a probability model of complete sequences, we propose particle smoothing---a form of sequential importance sampling---to impute the missing events in an incomplete sequence. We develop a trainable fa…
New Smith-Gysin sequence for non-semi-free actions without semi-free condition.
Develops effective adversarial attacks on probabilistic forecasting models.
The paper studies symplectic forms on projective limits of Banach bundles and their Darboux Theorem.
Algorithm optimizes biological sequences using bootstrapped training with a score-conditioned generator.