A review of open-source image analysis tools for mammalian cell culture: algorithms, features and implementations

H Malik, AS Idris, SF Toha, IM Idris, MF Daud… - PeerJ Computer …, 2023 - peerj.com
Cell culture is undeniably important for multiple scientific applications, including
pharmaceuticals, transplants, and cosmetics. However, cell culture involves multiple manual …

Open source bioimage informatics for cell biology

JR Swedlow, KW Eliceiri - Trends in cell biology, 2009 - cell.com
Significant technical advances in imaging, molecular biology and genomics have fueled a
revolution in cell biology, in that the molecular and structural processes of the cell are now …

Synthetic images of high-throughput microscopy for validation of image analysis methods

A Lehmussola, P Ruusuvuori… - Proceedings of the …, 2008 - ieeexplore.ieee.org
Automated image analysis provides a powerful tool when quantifying various characteristics
of cell populations. Previously, the validation of image analysis results has been a task of …

Analysis of live cell images: Methods, tools and opportunities

TA Nketia, H Sailem, G Rohde, R Machiraju, J Rittscher - Methods, 2017 - Elsevier
Advances in optical microscopy, biosensors and cell culturing technologies have
transformed live cell imaging. Thanks to these advances live cell imaging plays an …

CellTool: an open source software combining bio-image analysis and mathematical modeling

G Danovski, T Dyankova, S Stoynov - BioRxiv, 2018 - biorxiv.org
We present CellTool, a stand-alone open source software with a Graphical User Interface for
image analysis, optimized for measurement of time-lapse microscopy images. It combines …

Review of cell image synthesis for image processing

V Ulman, D Wiesner - Biomedical Image Synthesis and Simulation, 2022 - Elsevier
Opposites attract, also in the biomedical field and during the processing of cell microscopy
images. In the same spirit, image processing, the indispensable analyst tool, is often …

“Tonga”: a novel toolbox for straightforward bioimage analysis

A Ritchie, S Laitinen, P Katajisto… - Frontiers in Computer …, 2022 - frontiersin.org
Techniques to acquire and analyze biological images are central to life science. However,
the workflow downstream of imaging can be complex and involve several tools, leading to …

Computational framework for simulating fluorescence microscope images with cell populations

A Lehmussola, P Ruusuvuori… - IEEE transactions on …, 2007 - ieeexplore.ieee.org
Fluorescence microscopy combined with digital imaging constructs a basic platform for
numerous biomedical studies in the field of cellular imaging. As the studies relying on …

CytoPacq: a web-interface for simulating multi-dimensional cell imaging

D Wiesner, D Svoboda, M Maška, M Kozubek - Bioinformatics, 2019 - academic.oup.com
Motivation Objective assessment of bioimage analysis methods is an essential step towards
understanding their robustness and parameter sensitivity, calling for the availability of …

Open source tools for biological image analysis

R Guiet, O Burri, A Seitz - Computer Optimized Microscopy: Methods and …, 2019 - Springer
Abstract Visiting the Bio Imaging Search Engine (BISE)(Bio, BISE, Engine, http://biii. eu/,
Imaging, Search) website at the time of writing this article, almost 1200 open source assets …