Plant, A.
, Eliceiri, K.
and Carpenter, A.
(2012),
Review: Biological Imaging Software Tools, Nature Methods, [online], https://tsapps.nist.gov/publication/get_pdf.cfm?pub_id=911485
(Accessed October 10, 2025)
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Review: Biological Imaging Software Tools
Published
Author(s)
, Kevin Eliceiri, Anne Carpenter
Abstract
Few technologies are more widespread in modern biological laboratories than imaging by microscopy. Advancements in optical technologies and instrumentation over the past twenty years have led to massive improvements in the resolution, specificity, dimensionality, complexity, and scale of imaging experiments. Almost all such advancements have required the development of accompanying imaging software to enable the acquisition, management, analysis, and visualization of the imaging data. In this article, we review each computational step that biologists encounter when dealing with digital images from light microscopy and the challenges in that domain. We also describe the overall status of available software for each stage of the bioimaging informatics workflow as well as systems covering the entire workflow, with an emphasis on open-source options.Citation
Nature Methods
Pub Type
Journals
Download Paper
Keywords
imaging, biology, microscopy, software, computational, open-source
Citation
Issues
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Created August 29, 2012, Updated February 19, 2017