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Large Language Models (LLMs) have transformed natural language processing, but face significant challenges in widespread deployment due to their high runtime cost. In this paper, we introduce SeedLM, a novel post-training compression method that uses seeds of pseudo-random generators to encode and compress model weights. Specifically, for each block of weights, we find a seed that is fed into a Linear Feedback Shift Register (LFSR) during inference to efficiently generate a random matrix. This matrix is then linearly combined with compressed coefficients to reconstruct the weight block. SeedLM reduces memory access and leverages idle compute cycles during inference, effectively speeding up memory-bound tasks by trading compute for fewer memory accesses. Unlike state-of-the-art compression methods that rely on calibration data, our approach is data-free and generalizes well across diverse tasks. Our experiments with Llama 3 70B, which is particularly challenging to compress, show that SeedLM achieves significantly better zero-shot accuracy retention at 4- and 3-bit than state-of-the-art techniques, while maintaining performance comparable to FP16 baselines. Additionally, FPGA-based tests demonstrate that 4-bit SeedLM, as model size increases to 70B, approaches a 4x speed-up over an FP16 Llama 2/3 baseline.

Josephson junction spectroscopy is a powerful local microwave spectroscopy technique that has promising potential as a diagnostic tool to probe the microscopic origins of noise in superconducting qubits. We present advancements toward realizing Josephson junction spectroscopy in a scanning geometry, where the Josephson junction is formed between a superconducting sample and a high capacitance superconducting STM tip. Data from planar Nb-based Josephson junction devices first demonstrate the benefits of including a high capacitance shunt across the junction, which decreases linewidth and improves performance at elevated temperatures. We show how an equivalent circuit can be implemented by utilizing a planarized STM tip with local prominences, which are fabricated via electron beam lithography and reactive ion etching, followed by coating with a superconducting layer. Differential conductance measurements on a superconducting NbN surface demonstrate the ability of these high capacitance tips to decrease both thermal noise and P(E)-broadening in comparison to typical wire tips., Comment: 8 pages, 7 figures

Weakly supervised whole slide image classification is a key task in computational pathology, which involves predicting a slide-level label from a set of image patches constituting the slide. Constructing models to solve this task involves multiple design choices, often made without robust empirical or conclusive theoretical justification. To address this, we conduct a comprehensive benchmarking of feature extractors to answer three critical questions: 1) Is stain normalisation still a necessary preprocessing step? 2) Which feature extractors are best for downstream slide-level classification? 3) How does magnification affect downstream performance? Our study constitutes the most comprehensive evaluation of publicly available pathology feature extractors to date, involving more than 10,000 training runs across 14 feature extractors, 9 tasks, 5 datasets, 3 downstream architectures, 2 levels of magnification, and various preprocessing setups. Our findings challenge existing assumptions: 1) We observe empirically, and by analysing the latent space, that skipping stain normalisation and image augmentations does not degrade performance, while significantly reducing memory and computational demands. 2) We develop a novel evaluation metric to compare relative downstream performance, and show that the choice of feature extractor is the most consequential factor for downstream performance. 3) We find that lower-magnification slides are sufficient for accurate slide-level classification. Contrary to previous patch-level benchmarking studies, our approach emphasises clinical relevance by focusing on slide-level biomarker prediction tasks in a weakly supervised setting with external validation cohorts. Our findings stand to streamline digital pathology workflows by minimising preprocessing needs and informing the selection of feature extractors., Comment: For the conference version see: arXiv:2311.11772v4. For the longer journal version with additional experiments see arXiv:2311.11772v5

Traditional supervised learning tasks require a label for every instance in the training set, but in many real-world applications, labels are only available for collections (bags) of instances. This problem setting, known as multiple instance learning (MIL), is particularly relevant in the medical domain, where high-resolution images are split into smaller patches, but labels apply to the image as a whole. Recent MIL models are able to capture correspondences between patches by employing self-attention, allowing them to weigh each patch differently based on all other patches in the bag. However, these approaches still do not consider the relative spatial relationships between patches within the larger image, which is especially important in computational pathology. To this end, we introduce a novel MIL model with distance-aware self-attention (DAS-MIL), which explicitly takes into account relative spatial information when modelling the interactions between patches. Unlike existing relative position representations for self-attention which are discrete, our approach introduces continuous distance-dependent terms into the computation of the attention weights, and is the first to apply relative position representations in the context of MIL. We evaluate our model on a custom MNIST-based MIL dataset that requires the consideration of relative spatial information, as well as on CAMELYON16, a publicly available cancer metastasis detection dataset, where we achieve a test AUROC score of 0.91. On both datasets, our model outperforms existing MIL approaches that employ absolute positional encodings, as well as existing relative position representation schemes applied to MIL. Our code is available at https://anonymous.4open.science/r/das-mil.

Over the past decade the use of machine learning in meteorology has grown rapidly. Specifically neural networks and deep learning have been used at an unprecedented rate. In order to fill the dearth of resources covering neural networks with a meteorological lens, this paper discusses machine learning methods in a plain language format that is targeted for the operational meteorological community. This is the second paper in a pair that aim to serve as a machine learning resource for meteorologists. While the first paper focused on traditional machine learning methods (e.g., random forest), here a broad spectrum of neural networks and deep learning methods are discussed. Specifically this paper covers perceptrons, artificial neural networks, convolutional neural networks and U-networks. Like the part 1 paper, this manuscript discusses the terms associated with neural networks and their training. Then the manuscript provides some intuition behind every method and concludes by showing each method used in a meteorological example of diagnosing thunderstorms from satellite images (e.g., lightning flashes). This paper is accompanied with an open-source code repository to allow readers to explore neural networks using either the dataset provided (which is used in the paper) or as a template for alternate datasets.

The presence and density of specific types of immune cells are important to understand a patient's immune response to cancer. However, immunofluorescence staining required to identify T cell subtypes is expensive, time-consuming, and rarely performed in clinical settings. We present a framework to virtually stain Hoechst images (which are cheap and widespread) with both CD3 and CD8 to identify T cell subtypes in clear cell renal cell carcinoma using generative adversarial networks. Our proposed method jointly learns both staining tasks, incentivising the network to incorporate mutually beneficial information from each task. We devise a novel metric to quantify the virtual staining quality, and use it to evaluate our method., Comment: Accepted at IEEE/CVF Winter Conference on Applications of Computer Vision (WACV) 2023

Histopathology relies on the analysis of microscopic tissue images to diagnose disease. A crucial part of tissue preparation is staining whereby a dye is used to make the salient tissue components more distinguishable. However, differences in laboratory protocols and scanning devices result in significant confounding appearance variation in the corresponding images. This variation increases both human error and the inter-rater variability, as well as hinders the performance of automatic or semi-automatic methods. In the present paper we introduce an unsupervised adversarial network to translate (and hence normalize) whole slide images across multiple data acquisition domains. Our key contributions are: (i) an adversarial architecture which learns across multiple domains with a single generator-discriminator network using an information flow branch which optimizes for perceptual loss, and (ii) the inclusion of an additional feature extraction network during training which guides the transformation network to keep all the structural features in the tissue image intact. We: (i) demonstrate the effectiveness of the proposed method firstly on H\&E slides of 120 cases of kidney cancer, as well as (ii) show the benefits of the approach on more general problems, such as flexible illumination based natural image enhancement and light source adaptation.

Recently, the use of machine learning in meteorology has increased greatly. While many machine learning methods are not new, university classes on machine learning are largely unavailable to meteorology students and are not required to become a meteorologist. The lack of formal instruction has contributed to perception that machine learning methods are 'black boxes' and thus end-users are hesitant to apply the machine learning methods in their every day workflow. To reduce the opaqueness of machine learning methods and lower hesitancy towards machine learning in meteorology, this paper provides a survey of some of the most common machine learning methods. A familiar meteorological example is used to contextualize the machine learning methods while also discussing machine learning topics using plain language. The following machine learning methods are demonstrated: linear regression; logistic regression; decision trees; random forest; gradient boosted decision trees; naive Bayes; and support vector machines. Beyond discussing the different methods, the paper also contains discussions on the general machine learning process as well as best practices to enable readers to apply machine learning to their own datasets. Furthermore, all code (in the form of Jupyter notebooks and Google Colaboratory notebooks) used to make the examples in the paper is provided in an effort to catalyse the use of machine learning in meteorology.

The ideal superconductor provides a pristine environment for the delicate states of a quantum computer: because there is an energy gap to excitations, there are no spurious modes with which the qubits can interact, causing irreversible decay of the quantum state. As a practical matter, however, there exists a high density of excitations out of the superconducting ground state even at ultralow temperature; these are known as quasiparticles. Observed quasiparticle densities are of order 1~$\mu$m$^{-3}$, tens of orders of magnitude larger than the equilibrium density expected from theory. Nonequilibrium quasiparticles extract energy from the qubit mode and induce discrete changes in qubit offset charge, a potential source of dephasing. Here we show that a dominant mechanism for quasiparticle poisoning in superconducting qubits is direct absorption of high-energy photons at the qubit junction. We use a Josephson junction-based photon source to controllably dose qubit circuits with millimeter-wave radiation, and we use an interferometric quantum gate sequence to reconstruct the charge parity on the qubit island. We find that the structure of the qubit itself acts as a resonant antenna for millimeter-wave radiation, providing an efficient path for photons to generate quasiparticle excitations. A deep understanding of this physics will pave the way to realization of next-generation superconducting qubits that are robust against quasiparticle poisoning and could enable a new class of quantum sensors for dark matter detection., Comment: 13 pages, 11 figures, 3 tables

Multiplex immunofluorescence and immunohistochemistry benefit patients by allowing cancer pathologists to identify several proteins expressed on the surface of cells, enabling cell classification, better understanding of the tumour micro-environment, more accurate diagnoses, prognoses, and tailored immunotherapy based on the immune status of individual patients. However, they are expensive and time consuming processes which require complex staining and imaging techniques by expert technicians. Hoechst staining is much cheaper and easier to perform, but is not typically used in this case as it binds to DNA rather than to the proteins targeted by immunofluorescent techniques, and it was not previously thought possible to differentiate cells expressing these proteins based only on DNA morphology. In this work we show otherwise, training a deep convolutional neural network to identify cells expressing three proteins (T lymphocyte markers CD3 and CD8, and the B lymphocyte marker CD20) with greater than 90% precision and recall, from Hoechst 33342 stained tissue only. Our model learns previously unknown morphological features associated with expression of these proteins which can be used to accurately differentiate lymphocyte subtypes for use in key prognostic metrics such as assessment of immune cell infiltration,and thereby predict and improve patient outcomes without the need for costly multiplex immunofluorescence., Comment: 15 pages, 4 figures

Understanding the predictions made by Artificial Intelligence (AI) systems is becoming more and more important as deep learning models are used for increasingly complex and high-stakes tasks. Saliency mapping -- a popular visual attribution method -- is one important tool for this, but existing formulations are limited by either computational cost or architectural constraints. We therefore propose Hierarchical Perturbation, a very fast and completely model-agnostic method for interpreting model predictions with robust saliency maps. Using standard benchmarks and datasets, we show that our saliency maps are of competitive or superior quality to those generated by existing model-agnostic methods -- and are over 20 times faster to compute., Comment: github.com/jessicamarycooper/Hierarchical-Perturbation