arXiv subjects

Roderick Murray-Smith

Publications and source records attributed to Roderick Murray-Smith.

At least 37 records · Page 2Linked to original sources

arXiv2023

mmSense: Detecting Concealed Weapons with a Miniature Radar Sensor

For widespread adoption, public security and surveillance systems must be accurate, portable, compact, and real-time, without impeding the privacy of the individuals being observed. Current systems broadly fall into two categories -- image-based which are accurate, but lack privacy, and RF signal-based, which preserve privacy but lack portability, compactness and accuracy. Our paper proposes mmSense, an end-to-end portable miniaturised real-time system that can accurately detect the presence of concealed metallic objects on persons in a discrete, privacy-preserving modality. mmSense features millimeter wave radar technology, provided by Google's Soli sensor for its data acquisition, and TransDope, our real-time neural network, capable of processing a single radar data frame in 19 ms. mmSense achieves high recognition rates on a diverse set of challenging scenes while running on standard laptop hardware, demonstrating a significant advancement towards creating portable, cost-effective real-time radar based surveillance systems.

cs.LG↗

arXiv2023

The Fully Convolutional Transformer for Medical Image Segmentation

We propose a novel transformer model, capable of segmenting medical images of varying modalities. Challenges posed by the fine grained nature of medical image analysis mean that the adaptation of the transformer for their analysis is still at nascent stages. The overwhelming success of the UNet lay in its ability to appreciate the fine-grained nature of the segmentation task, an ability which existing transformer based models do not currently posses. To address this shortcoming, we propose The Fully Convolutional Transformer (FCT), which builds on the proven ability of Convolutional Neural Networks to learn effective image representations, and combines them with the ability of Transformers to effectively capture long-term dependencies in its inputs. The FCT is the first fully convolutional Transformer model in medical imaging literature. It processes its input in two stages, where first, it learns to extract long range semantic dependencies from the input image, and then learns to capture hierarchical global attributes from the features. FCT is compact, accurate and robust. Our results show that it outperforms all existing transformer architectures by large margins across multiple medical image segmentation datasets of varying data modalities without the need for any pre-training. FCT outperforms its immediate competitor on the ACDC dataset by 1.3%, on the Synapse dataset by 4.4%, on the Spleen dataset by 1.2% and on ISIC 2017 dataset by 1.1% on the dice metric, with up to five times fewer parameters. Our code, environments and models will be available via GitHub.

eess.IV↗

arXiv2022

Optimizing Vision Transformers for Medical Image Segmentation

For medical image semantic segmentation (MISS), Vision Transformers have emerged as strong alternatives to convolutional neural networks thanks to their inherent ability to capture long-range correlations. However, existing research uses off-the-shelf vision Transformer blocks based on linear projections and feature processing which lack spatial and local context to refine organ boundaries. Furthermore, Transformers do not generalize well on small medical imaging datasets and rely on large-scale pre-training due to limited inductive biases. To address these problems, we demonstrate the design of a compact and accurate Transformer network for MISS, CS-Unet, which introduces convolutions in a multi-stage design for hierarchically enhancing spatial and local modeling ability of Transformers. This is mainly achieved by our well-designed Convolutional Swin Transformer (CST) block which merges convolutions with Multi-Head Self-Attention and Feed-Forward Networks for providing inherent localized spatial context and inductive biases. Experiments demonstrate CS-Unet without pre-training outperforms other counterparts by large margins on multi-organ and cardiac datasets with fewer parameters and achieves state-of-the-art performance. Our code is available at Github.

cs.CV↗

arXiv2022

Subgraph Permutation Equivariant Networks

In this work we develop a new method, named Sub-graph Permutation Equivariant Networks (SPEN), which provides a framework for building graph neural networks that operate on sub-graphs, while using a base update function that is permutation equivariant, that are equivariant to a novel choice of automorphism group. Message passing neural networks have been shown to be limited in their expressive power and recent approaches to over come this either lack scalability or require structural information to be encoded into the feature space. The general framework presented here overcomes the scalability issues associated with global permutation equivariance by operating more locally on sub-graphs. In addition, through operating on sub-graphs the expressive power of higher-dimensional global permutation equivariant networks is improved; this is due to fact that two non-distinguishable graphs often contain distinguishable sub-graphs. Furthermore, the proposed framework only requires a choice of $k$-hops for creating ego-network sub-graphs and a choice of representation space to be used for each layer, which makes the method easily applicable across a range of graph based domains. We experimentally validate the method on a range of graph benchmark classification tasks, demonstrating statistically indistinguishable results from the state-of-the-art on six out of seven benchmarks. Further, we demonstrate that the use of local update functions offers a significant improvement in GPU memory over global methods.

cs.LG↗

arXiv2022

Bessel Equivariant Networks for Inversion of Transmission Effects in Multi-Mode Optical Fibres

We develop a new type of model for solving the task of inverting the transmission effects of multi-mode optical fibres through the construction of an $\mathrm{SO}^{+}(2,1)$-equivariant neural network. This model takes advantage of the of the azimuthal correlations known to exist in fibre speckle patterns and naturally accounts for the difference in spatial arrangement between input and speckle patterns. In addition, we use a second post-processing network to remove circular artifacts, fill gaps, and sharpen the images, which is required due to the nature of optical fibre transmission. This two stage approach allows for the inspection of the predicted images produced by the more robust physically motivated equivariant model, which could be useful in a safety-critical application, or by the output of both models, which produces high quality images. Further, this model can scale to previously unachievable resolutions of imaging with multi-mode optical fibres and is demonstrated on $256 \times 256$ pixel images. This is a result of improving the trainable parameter requirement from $\mathcal{O}(N^4)$ to $\mathcal{O}(m)$, where $N$ is pixel size and $m$ is number of fibre modes. Finally, this model generalises to new images, outside of the set of training data classes, better than previous models.

physics.optics↗

arXiv2022

Survey: Leakage and Privacy at Inference Time

Leakage of data from publicly available Machine Learning (ML) models is an area of growing significance as commercial and government applications of ML can draw on multiple sources of data, potentially including users' and clients' sensitive data. We provide a comprehensive survey of contemporary advances on several fronts, covering involuntary data leakage which is natural to ML models, potential malevolent leakage which is caused by privacy attacks, and currently available defence mechanisms. We focus on inference-time leakage, as the most likely scenario for publicly available models. We first discuss what leakage is in the context of different data, tasks, and model architectures. We then propose a taxonomy across involuntary and malevolent leakage, available defences, followed by the currently available assessment metrics and applications. We conclude with outstanding challenges and open questions, outlining some promising directions for future research.

cs.LG↗

arXiv2021

Rotation Equivariant Deforestation Segmentation and Driver Classification

Deforestation has become a significant contributing factor to climate change and, due to this, both classifying the drivers and predicting segmentation maps of deforestation has attracted significant interest. In this work, we develop a rotation equivariant convolutional neural network model to predict the drivers and generate segmentation maps of deforestation events from Landsat 8 satellite images. This outperforms previous methods in classifying the drivers and predicting the segmentation map of deforestation, offering a 9% improvement in classification accuracy and a 7% improvement in segmentation map accuracy. In addition, this method predicts stable segmentation maps under rotation of the input image, which ensures that predicted regions of deforestation are not dependent upon the rotational orientation of the satellite.

cs.CV↗

arXiv2021

Bayesian parameter estimation using conditional variational autoencoders for gravitational-wave astronomy

Gravitational wave (GW) detection is now commonplace and as the sensitivity of the global network of GW detectors improves, we will observe $\mathcal{O}(100)$s of transient GW events per year. The current methods used to estimate their source parameters employ optimally sensitive but computationally costly Bayesian inference approaches where typical analyses have taken between 6 hours and 5 days. For binary neutron star and neutron star black hole systems prompt counterpart electromagnetic (EM) signatures are expected on timescales of 1 second -- 1 minute and the current fastest method for alerting EM follow-up observers, can provide estimates in $\mathcal{O}(1)$ minute, on a limited range of key source parameters. Here we show that a conditional variational autoencoder pre-trained on binary black hole signals can return Bayesian posterior probability estimates. The training procedure need only be performed once for a given prior parameter space and the resulting trained machine can then generate samples describing the posterior distribution $\sim 6$ orders of magnitude faster than existing techniques.

astro-ph.IM↗

arXiv2021

Rotation Equivariant 3D Hand Mesh Generation from a Single RGB Image

We develop a rotation equivariant model for generating 3D hand meshes from 2D RGB images. This guarantees that as the input image of a hand is rotated the generated mesh undergoes a corresponding rotation. Furthermore, this removes undesirable deformations in the meshes often generated by methods without rotation equivariance. By building a rotation equivariant model, through considering symmetries in the problem, we reduce the need for training on very large datasets to achieve good mesh reconstruction. The encoder takes images defined on $\mathbb{Z}^{2}$ and maps these to latent functions defined on the group $C_{8}$. We introduce a novel vector mapping function to map the function defined on $C_{8}$ to a latent point cloud space defined on the group $\mathrm{SO}(2)$. Further, we introduce a 3D projection function that learns a 3D function from the $\mathrm{SO}(2)$ latent space. Finally, we use an $\mathrm{SO}(3)$ equivariant decoder to ensure rotation equivariance. Our rotation equivariant model outperforms state-of-the-art methods on a real-world dataset and we demonstrate that it accurately captures the shape and pose in the generated meshes under rotation of the input hand.

cs.CV↗

arXiv2021

CpT: Convolutional Point Transformer for 3D Point Cloud Processing

We present CpT: Convolutional point Transformer - a novel deep learning architecture for dealing with the unstructured nature of 3D point cloud data. CpT is an improvement over existing attention-based Convolutions Neural Networks as well as previous 3D point cloud processing transformers. It achieves this feat due to its effectiveness in creating a novel and robust attention-based point set embedding through a convolutional projection layer crafted for processing dynamically local point set neighbourhoods. The resultant point set embedding is robust to the permutations of the input points. Our novel CpT block builds over local neighbourhoods of points obtained via a dynamic graph computation at each layer of the networks' structure. It is fully differentiable and can be stacked just like convolutional layers to learn global properties of the points. We evaluate our model on standard benchmark datasets such as ModelNet40, ShapeNet Part Segmentation, and the S3DIS 3D indoor scene semantic segmentation dataset to show that our model can serve as an effective backbone for various point cloud processing tasks when compared to the existing state-of-the-art approaches.

cs.CV↗

arXiv2021

Learning Robust Controllers Via Probabilistic Model-Based Policy Search

Model-based Reinforcement Learning estimates the true environment through a world model in order to approximate the optimal policy. This family of algorithms usually benefits from better sample efficiency than their model-free counterparts. We investigate whether controllers learned in such a way are robust and able to generalize under small perturbations of the environment. Our work is inspired by the PILCO algorithm, a method for probabilistic policy search. We show that enforcing a lower bound to the likelihood noise in the Gaussian Process dynamics model regularizes the policy updates and yields more robust controllers. We demonstrate the empirical benefits of our method in a simulation benchmark.

cs.LG↗

arXiv2021

Forward and Inverse models in HCI:Physical simulation and deep learning for inferring 3D finger pose

We outline the role of forward and inverse modelling approaches in the design of human--computer interaction systems. Causal, forward models tend to be easier to specify and simulate, but HCI requires solutions of the inverse problem. We infer finger 3D position $(x,y,z)$ and pose (pitch and yaw) on a mobile device using capacitive sensors which can sense the finger up to 5cm above the screen. We use machine learning to develop data-driven models to infer position, pose and sensor readings, based on training data from: 1. data generated by robots, 2. data from electrostatic simulators 3. human-generated data. Machine learned emulation is used to accelerate the electrostatic simulation performance by a factor of millions. We combine a Conditional Variational Autoencoder with domain expertise/models experimentally collected data. We compare forward and inverse model approaches to direct inference of finger pose. The combination gives the most accurate reported results on inferring 3D position and pose with a capacitive sensor on a mobile device.

cs.HC↗

arXiv2021

Max-Utility Based Arm Selection Strategy For Sequential Query Recommendations

We consider the query recommendation problem in closed loop interactive learning settings like online information gathering and exploratory analytics. The problem can be naturally modelled using the Multi-Armed Bandits (MAB) framework with countably many arms. The standard MAB algorithms for countably many arms begin with selecting a random set of candidate arms and then applying standard MAB algorithms, e.g., UCB, on this candidate set downstream. We show that such a selection strategy often results in higher cumulative regret and to this end, we propose a selection strategy based on the maximum utility of the arms. We show that in tasks like online information gathering, where sequential query recommendations are employed, the sequences of queries are correlated and the number of potentially optimal queries can be reduced to a manageable size by selecting queries with maximum utility with respect to the currently executing query. Our experimental results using a recent real online literature discovery service log file demonstrate that the proposed arm selection strategy improves the cumulative regret substantially with respect to the state-of-the-art baseline algorithms. % and commonly used random selection strategy for a variety of contextual multi-armed bandit algorithms. Our data model and source code are available at ~\url{https://anonymous.4open.science/r/0e5ad6b7-ac02-4577-9212-c9d505d3dbdb/}.

cs.LG↗

arXiv2021

IntenT5: Search Result Diversification using Causal Language Models

Search result diversification is a beneficial approach to overcome under-specified queries, such as those that are ambiguous or multi-faceted. Existing approaches often rely on massive query logs and interaction data to generate a variety of possible query intents, which then can be used to re-rank documents. However, relying on user interaction data is problematic because one first needs a massive user base to build a sufficient log; public query logs are insufficient on their own. Given the recent success of causal language models (such as the Text-To-Text Transformer (T5) model) at text generation tasks, we explore the capacity of these models to generate potential query intents. We find that to encourage diversity in the generated queries, it is beneficial to adapt the model by including a new Distributional Causal Language Modeling (DCLM) objective during fine-tuning and a representation replacement during inference. Across six standard evaluation benchmarks, we find that our method (which we call IntenT5) improves search result diversity and attains (and sometimes exceeds) the diversity obtained when using query suggestions based on a proprietary query log. Our analysis shows that our approach is most effective for multi-faceted queries and is able to generalize effectively to queries that were unseen in training data.

cs.IR↗

arXiv2021

Adversarial learning of cancer tissue representations

Deep learning based analysis of histopathology images shows promise in advancing the understanding of tumor progression, tumor micro-environment, and their underpinning biological processes. So far, these approaches have focused on extracting information associated with annotations. In this work, we ask how much information can be learned from the tissue architecture itself. We present an adversarial learning model to extract feature representations of cancer tissue, without the need for manual annotations. We show that these representations are able to identify a variety of morphological characteristics across three cancer types: Breast, colon, and lung. This is supported by 1) the separation of morphologic characteristics in the latent space; 2) the ability to classify tissue type with logistic regression using latent representations, with an AUC of 0.97 and 85% accuracy, comparable to supervised deep models; 3) the ability to predict the presence of tumor in Whole Slide Images (WSIs) using multiple instance learning (MIL), achieving an AUC of 0.98 and 94% accuracy. Our results show that our model captures distinct phenotypic characteristics of real tissue samples, paving the way for further understanding of tumor progression and tumor micro-environment, and ultimately refining histopathological classification for diagnosis and treatment. The code and pretrained models are available at: https://github.com/AdalbertoCq/Adversarial-learning-of-cancer-tissue-representations

eess.IV↗

arXiv2021

On node ranking in graphs

The ranking of nodes in a network according to their ``importance'' is a classic problem that has attracted the interest of different scientific communities in the last decades. The current COVID-19 pandemic has recently rejuvenated the interest in this problem, as it is related to the selection of which individuals should be tested in a population of asymptomatic individuals, or which individuals should be vaccinated first. Motivated by the COVID-19 spreading dynamics, in this paper we review the most popular methods for node ranking in undirected unweighted graphs, and compare their performance in a benchmark realistic network, that takes into account the community-based structure of society. Also, we generalize a classic benchmark network originally proposed by Newman for ranking nodes in unweighted graphs, to show how ranks change in the weighted case.

physics.soc-ph↗

arXiv2021

PathologyGAN: Learning deep representations of cancer tissue

Histopathological images of tumors contain abundant information about how tumors grow and how they interact with their micro-environment. Better understanding of tissue phenotypes in these images could reveal novel determinants of pathological processes underlying cancer, and in turn improve diagnosis and treatment options. Advances of Deep learning makes it ideal to achieve those goals, however, its application is limited by the cost of high quality labels from patients data. Unsupervised learning, in particular, deep generative models with representation learning properties provides an alternative path to further understand cancer tissue phenotypes, capturing tissue morphologies. In this paper, we develop a framework which allows GANs to capture key tissue features and uses these characteristics to give structure to its latent space. To this end, we trained our model on two different datasets, an H&E colorectal cancer tissue from the National Center for Tumor diseases (NCT) and an H&E breast cancer tissue from the Netherlands Cancer Institute (NKI) and Vancouver General Hospital (VGH). Composed of 86 slide images and 576 TMAs respectively. We show that our model generates high quality images, with a FID of 16.65 (breast cancer) and 32.05 (colorectal cancer). We further assess the quality of the images with cancer tissue characteristics (e.g. count of cancer, lymphocytes, or stromal cells), using quantitative information to calculate the FID and showing consistent performance of 9.86. Additionally, the latent space of our model shows an interpretable structure and allows semantic vector operations that translate into tissue feature transformations. Furthermore, ratings from two expert pathologists found no significant difference between our generated tissue images from real ones. The code, images, and pretrained models are available at https://github.com/AdalbertoCq/Pathology-GAN

eess.IV↗

arXiv2021

A Graph VAE and Graph Transformer Approach to Generating Molecular Graphs

We propose a combination of a variational autoencoder and a transformer based model which fully utilises graph convolutional and graph pooling layers to operate directly on graphs. The transformer model implements a novel node encoding layer, replacing the position encoding typically used in transformers, to create a transformer with no position information that operates on graphs, encoding adjacent node properties into the edge generation process. The proposed model builds on graph generative work operating on graphs with edge features, creating a model that offers improved scalability with the number of nodes in a graph. In addition, our model is capable of learning a disentangled, interpretable latent space that represents graph properties through a mapping between latent variables and graph properties. In experiments we chose a benchmark task of molecular generation, given the importance of both generated node and edge features. Using the QM9 dataset we demonstrate that our model performs strongly across the task of generating valid, unique and novel molecules. Finally, we demonstrate that the model is interpretable by generating molecules controlled by molecular properties, and we then analyse and visualise the learned latent representation.

cs.LG↗