Related papers: Cellulyzer - Automated analysis and interactive vi…
Recent advances in digital imaging, e.g., increased number of pixels captured, have meant that the volume of data to be processed and analyzed from these images has also increased. Deep learning algorithms are state-of-the-art for analyzing…
Automated synthesis of histology images has several potential applications in computational pathology. However, no existing method can generate realistic tissue images with a bespoke cellular layout or user-defined histology parameters. In…
Emergent processes in complex systems such as cellular automata can perform computations of increasing complexity, and could possibly lead to artificial evolution. Such a feat would require scaling up current simulation sizes to allow for…
We propose a novel approach to automatically tracking cell populations in time-lapse images. To account for cell occlusions and overlaps, we introduce a robust method that generates an over-complete set of competing detection hypotheses. We…
The accurate tracking of live cells using video microscopy recordings remains a challenging task for popular state-of-the-art image processing based object tracking methods. In recent years, several existing and new applications have…
Cell segmentation is a critical step for quantitative single-cell analysis in microscopy images. Existing cell segmentation methods are often tailored to specific modalities or require manual interventions to specify hyper-parameters in…
Cell segmentation and tracking allow us to extract a plethora of cell attributes from bacterial time-lapse cell movies, thus promoting computational modeling and simulation of biological processes down to the single-cell level. However, to…
In order to image live cells for prolonged periods of time, an Arduino-based, low-cost imaging incubator was constructed. The imaging incubator keeps cells viable by controlling for temperature and CO2 in order to maintain physiological…
We present a new annotated microscopic cellular image dataset to improve the effectiveness of machine learning methods for cellular image analysis. Cell counting is an important step in cell analysis. Typically, domain experts manually…
We present Synthesizer, a fast, flexible, modular and extensible platform for modelling synthetic astrophysical observables. Synthesizer can be used for a number of applications, but is predominantly designed for generating mock observables…
Cell tracking is a ubiquitous image analysis task in live-cell microscopy. Unlike multiple object tracking (MOT) for natural images, cell tracking typically involves hundreds of similar-looking objects that can divide in each frame, making…
This paper presents a new synthesis-based approach for batch image processing. Unlike existing tools that can only apply global edits to the entire image, our method can apply fine-grained edits to individual objects within the image. For…
In this perspective, we examine three key aspects of an end-to-end pipeline for realistic cellular simulations: reconstruction and segmentation of cellular structures; generation of cellular structures; and mesh generation, simulation, and…
Our work targets automated analysis to quantify the growth dynamics of a population of bacilliform bacteria. We propose an innovative approach to frame-sequence tracking of deformable-cell motion by the automated minimization of a new,…
Biological image analysis has traditionally focused on measuring specific visual properties of interest for cells or other entities. A complementary paradigm gaining increasing traction is image-based profiling - quantifying many distinct…
We describe a system that simplifies the process of debugging programs produced by computer-aided parallelization tools. The system uses relative debugging techniques to compare serial and parallel executions in order to show where the…
At the most fundamental level, all digital images are just large arrays of numbers that can easily be manipulated by computer software. Specialized digital imaging software packages often use routines common to many different applications…
In this work, the possibilities for segmentation of cells from their background and each other in digital image were tested, combined and improoved. Lot of images with young, adult and mixture cells were able to prove the quality of…
Debugging is an essential part of software maintenance and evolution since it allows software developers to analyze program execution step by step. Understanding a program is required to fix potential flaws, alleviate bottlenecks, and…
A wide range of scientific imaging datasets benefit from human inspection for purposes ranging from prosaic-such as fault identification and quality inspection-to profound, enabling the discovery of new phenomena. As such, these datasets…