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ImageJ and CellProf...
ImageJ and CellProfiler : Complements in Open‐Source Bioimage Analysis
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- Dobson, Ellen T.A. (author)
- Laboratory for Optical and Computational Instrumentation (LOCI) Center for Quantitative Cell Imaging University of Wisconsin at Madison Madison Wisconsin
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- Cimini, Beth (author)
- Imaging Platform Broad Institute of Harvard and MIT Cambridge Massachusetts
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- Klemm, Anna H (author)
- Uppsala universitet,Science for Life Laboratory, SciLifeLab,Institutionen för informationsteknologi
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- Wählby, Carolina, professor, 1974- (author)
- Uppsala universitet,Science for Life Laboratory, SciLifeLab,Institutionen för informationsteknologi
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- Carpenter, Anne E. (author)
- Imaging Platform Broad Institute of Harvard and MIT Cambridge Massachusetts
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- Eliceiri, Kevin W (author)
- Laboratory for Optical and Computational Instrumentation (LOCI) Center for Quantitative Cell Imaging University of Wisconsin at Madison Madison Wisconsin;Department of Medical Physics University of Wisconsin at Madison Madison Wisconsin;Morgridge Institute for Research Madison Wisconsin
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(creator_code:org_t)
- 2021-05-26
- 2021
- English.
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In: Current Protocols in Microbiology. - : John Wiley & Sons. - 1934-8525 .- 1088-7423. ; 1:5
- Related links:
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https://currentproto...
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https://urn.kb.se/re...
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https://doi.org/10.1...
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Abstract
Subject headings
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- ImageJ and CellProfiler have long been leading open-source platforms in the field of bioimage analysis. ImageJ's traditional strength is in single-image processing and investigation, while CellProfiler is designed for building large-scale, modular analysis pipelines. Although many image analysis problems can be well solved with one or the other, using these two platforms together in a single workflow can be powerful. Here, we share two pipelines demonstrating mechanisms for productively and conveniently integrating ImageJ and CellProfiler for (1) studying cell morphology and migration via tracking, and (2) advanced stitching techniques for handling large, tiled image sets to improve segmentation. No single platform can provide all the key and most efficient functionality needed for all studies. While both programs can be and are often used separately, these pipelines demonstrate the benefits of using them together for image analysis workflows. ImageJ and CellProfiler are both committed to interoperability between their platforms, with ongoing development to improve how both are leveraged from the other
Keyword
- Medical Laboratory Technology
- Health Informatics
- General Pharmacology
- Toxicology and Pharmaceutics
- General Immunology and Microbiology
- General Biochemistry
- Genetics and Molecular Biology
- General Neuroscience
- Bioinformatics
- Bioinformatik
- Bioinformatics
- Bioinformatik
- Computerized Image Processing
- Datoriserad bildbehandling
Publication and Content Type
- ref (subject category)
- art (subject category)
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