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We present BIOMERO 2.0, a major evolution of the BIOMERO framework that transforms OMERO into a FAIR-compliant (findable, accessible, interoperable, and reusable), provenance-aware bioimaging platform. BIOMERO 2.0 integrates data import,…
Computational Pathology CPath is an interdisciplinary science that augments developments of computational approaches to analyze and model medical histopathology images. The main objective for CPath is to develop infrastructure and workflows…
Quantitative phase imaging (QPI) is an emerging label-free technique that produces images containing morphological and dynamical information without contrast agents. Unfortunately, the phase is wrapped in most imaging system. Phase…
Complex optical design is hindered by conventional piecewise setup, which prevents modularization and therefore abstraction of subsystems at the circuit level. This limits multiple fields that require complex optics systems, including…
{\mu}Manager, an open-source microscopy acquisition software, has been an essential tool for many microscopy experiments over the past 15 years, but is not easy to use for experiments in which image acquisition and analysis are closely…
We developed a software pipeline for quality control (QC) of histopathology whole slide images (WSIs) that segments various regions, such as blurs of different levels, tissue regions, tissue folds, and pen marks. Given the necessity and…
Deep learning has emerged as a pivotal tool for accelerating research in the life sciences, with the low-level processing of biomedical images (e.g., registration, fusion, restoration, super-resolution) being one of its most critical…
We present QUBOLite, a Python package for the creation, manipulation, analysis, and solution of Quadratic Unconstrained Binary Optimization (QUBO) instances. Built as a thin wrapper around NumPy arrays, QUBOLite combines efficient numerical…
We present QUBO.jl, an end-to-end Julia package for working with QUBO (Quadratic Unconstrained Binary Optimization) instances. This tool aims to convert a broad range of JuMP problems for straightforward application in many physics and…
Developing clinically useful cell-level analysis tools in digital pathology remains challenging due to limitations in dataset granularity, inconsistent annotations, high computational demands, and difficulties integrating new technologies…
Quantitative phase imaging (QPI) is often used for label-free single cell analysis with its high-contrast images of optical phase delay (OPD) map. Contrary to other imaging methods, sensitivity improvement has not been intensively explored…
Quantum image processing (QIP) means the quantum based methods to speed up image processing algorithms. Many quantum image processing schemes claim that their efficiency are theoretically higher than their corresponding classical schemes.…
Pathology images of histopathology can be acquired from camera-mounted microscopes or whole slide scanners. Utilizing similarity calculations to match patients based on these images holds significant potential in research and clinical…
Quantum walk has emerged as an essential tool for searching marked vertices on various graphs. Recent advances in the discrete-time quantum walk search algorithm have enabled it to effectively handle multiple marked vertices, expanding its…
Digitized histopathology glass slides, known as Whole Slide Images (WSIs), are often several gigapixels large and contain sensitive metadata information, which makes distributed processing unfeasible. Moreover, artifacts in WSIs may result…
Tomographic imaging has benefited from advances in X-ray sources, detectors and optics to enable novel observations in science, engineering and medicine. These advances have come with a dramatic increase of input data in the form of faster…
We describe OHBA Software Library for the analysis of electrophysiological data (osl-ephys). This toolbox builds on top of the widely used MNE-Python package and provides unique analysis tools for magneto-/electro-encephalography (M/EEG)…
Processing of digital images is continuously gaining in volume and relevance, with concomitant demands on data storage, transmission and processing power. Encoding the image information in quantum-mechanical systems instead of classical…
We present Qibo, a new open-source software for fast evaluation of quantum circuits and adiabatic evolution which takes full advantage of hardware accelerators. The growing interest in quantum computing and the recent developments of…
Quantum techniques can be used to enhance the signal-to-noise ratio in optical imaging. Leveraging the latest advances in single photon avalanche diode array cameras and multi-photon detection techniques, here we introduce a super-sensitive…