Urban Land Cover Classification with Missing Data Modalities Using Deep Convolutional Neural Networks

Automatic urban land cover classification is a fundamental problem in remote sensing, e.g. for environmental monitoring. The problem is highly challenging, as classes generally have high inter-class and low intra-class variance. Techniques to improve urban land cover classification performance in remote sensing include fusion of data from different sensors with different data modalities. However, such techniques require all modalities to be available to the classifier in the decision-making process, i.e. at test time, as well as in training. If a data modality is missing at test time, current state-of-the-art approaches have in general no procedure available for exploiting information from these modalities. This represents a waste of potentially useful information. We propose as a remedy a convolutional neural network (CNN) architecture for urban land cover classification which is able to embed all available training modalities in a so-called hallucination network. The network will in effect replace missing data modalities in the test phase, enabling fusion capabilities even when data modalities are missing in testing. We demonstrate the method using two datasets consisting of optical and digital surface model (DSM) images. We simulate missing modalities by assuming that DSM images are missing during testing. Our method outperforms both standard CNNs trained only on optical images as well as an ensemble of two standard CNNs. We further evaluate the potential of our method to handle situations where only some DSM images are missing during testing. Overall, we show that we can clearly exploit training time information of the missing modality during testing.

An Unsupervised Multivariate Time Series Kernel Approach for Identifying Patients with Surgical Site Infection from Blood Samples

A large fraction of the electronic health records consists of clinical measurements collected over time, such as blood tests, which provide important information about the health status of a patient. These sequences of clinical measurements are naturally represented as time series, characterized by multiple variables and the presence of missing data, which complicate analysis. In this work, we propose a surgical site infection detection framework for patients undergoing colorectal cancer surgery that is completely unsupervised, hence alleviating the problem of getting access to labelled training data. The framework is based on powerful kernels for multivariate time series that account for missing data when computing similarities. Our approach show superior performance compared to baselines that have to resort to imputation techniques and performs comparable to a supervised classification baseline.

Bidirectional deep-readout echo state networks

We propose a deep architecture for the classification of multivariate time series. By means of a recurrent and untrained reservoir we generate a vectorial representation that embeds temporal relationships in the data. To improve the memorization capability, we implement a bidirectional reservoir, whose last state captures also past dependencies in the input. We apply dimensionality reduction to the final reservoir states to obtain compressed fixed size representations of the time series. These are subsequently fed into a deep feedforward network trained to perform the final classification. We test our architecture on benchmark datasets and on a real-world use-case of blood samples classification. Results show that our method performs better than a standard echo state network and, at the same time, achieves results comparable to a fully-trained recurrent network, but with a faster training.

Classification of postoperative surgical site infections from blood measurements with missing data using recurrent neural networks

Clinical measurements that can be represented as time series constitute an important fraction of the electronic health records and are often both uncertain and incomplete. Recurrent neural networks are a special class of neural networks that are particularly suitable to process time series data but, in their original formulation, cannot explicitly deal with missing data. In this paper, we explore imputation strategies for handling missing values in classifiers based on recurrent neural network (RNN) and apply a recently proposed recurrent architecture, the Gated Recurrent Unit with Decay, specifically designed to handle missing data. We focus on the problem of detecting surgical site infection in patients by analyzing time series of their blood sample measurements and we compare the results obtained with different RNN-based classifiers.

Learning compressed representations of blood samples time series with missing data

Clinical measurements collected over time are naturally represented as multivariate time series (MTS), which often contain missing data. An autoencoder can learn low dimensional vectorial representations of MTS that preserve important data characteristics, but cannot deal explicitly with missing data. In this work, we propose a new framework that combines an autoencoder with the Time series Cluster Kernel (TCK), a kernel that accounts for missingness patterns in MTS. Via kernel alignment, we incorporate TCK in the autoencoder to improve the learned representations in presence of missing data. We consider a classification problem of MTS with missing values, representing blood samples of patients with surgical site infection. With our approach, rather than with a standard autoencoder, we learn representations in low dimensions that can be classified better.

Time Series Cluster Kernel for Learning Similarities between Multivariate Time Series with Missing Data

Similarity-based approaches represent a promising direction for time series analysis. However, many such methods rely on parameter tuning, and some have shortcomings if the time series are multivariate (MTS), due to dependencies between attributes, or the time series contain missing data. In this paper, we address these challenges within the powerful context of kernel methods by proposing the robust \emph{time series cluster kernel} (TCK). The approach taken leverages the missing data handling properties of Gaussian mixture models (GMM) augmented with informative prior distributions. An ensemble learning approach is exploited to ensure robustness to parameters by combining the clustering results of many GMM to form the final kernel. We evaluate the TCK on synthetic and real data and compare to other state-of-the-art techniques. The experimental results demonstrate that the TCK is robust to parameter choices, provides competitive results for MTS without missing data and outstanding results for missing data.

Spectral Clustering using PCKID - A Probabilistic Cluster Kernel for Incomplete Data

In this paper, we propose PCKID, a novel, robust, kernel function for spectral clustering, specifically designed to handle incomplete data. By combining posterior distributions of Gaussian Mixture Models for incomplete data on different scales, we are able to learn a kernel for incomplete data that does not depend on any critical hyperparameters, unlike the commonly used RBF kernel. To evaluate our method, we perform experiments on two real datasets. PCKID outperforms the baseline methods for all fractions of missing values and in some cases outperforms the baseline methods with up to 25 percentage points.

Deep Kernelized Autoencoders

In this paper we introduce the deep kernelized autoencoder, a neural network model that allows an explicit approximation of (i) the mapping from an input space to an arbitrary, user-specified kernel space and (ii) the back-projection from such a kernel space to input space. The proposed method is based on traditional autoencoders and is trained through a new unsupervised loss function. During training, we optimize both the reconstruction accuracy of input samples and the alignment between a kernel matrix given as prior and the inner products of the hidden representations computed by the autoencoder. Kernel alignment provides control over the hidden representation learned by the autoencoder. Experiments have been performed to evaluate both reconstruction and kernel alignment performance. Additionally, we applied our method to emulate kPCA on a denoising task obtaining promising results.

Multiplex visibility graphs to investigate recurrent neural networks dynamics

A recurrent neural network (RNN) is a universal approximator of dynamical systems, whose performance often depends on sensitive hyperparameters. Tuning of such hyperparameters may be difficult and, typically, based on a trial-and-error approach. In this work, we adopt a graph-based framework to interpret and characterize the internal RNN dynamics. Through this insight, we are able to design a principled unsupervised method to derive configurations with maximized performances, in terms of prediction error and memory capacity. In particular, we propose to model time series of neurons activations with the recently introduced horizontal visibility graphs, whose topological properties reflect important dynamical features of the underlying dynamic system. Successively, each graph becomes a layer of a larger structure, called multiplex. We show that topological properties of such a multiplex reflect important features of RNN dynamics and are used to guide the tuning procedure. To validate the proposed method, we consider a class of RNNs called echo state networks. We perform experiments and discuss results on several benchmarks and real-world dataset of call data records.

Temporal Overdrive Recurrent Neural Network

In this work we present a novel recurrent neural network architecture designed to model systems characterized by multiple characteristic timescales in their dynamics. The proposed network is composed by several recurrent groups of neurons that are trained to separately adapt to each timescale, in order to improve the system identification process. We test our framework on time series prediction tasks and we show some promising, preliminary results achieved on synthetic data. To evaluate the capabilities of our network, we compare the performance with several state-of-the-art recurrent architectures.