Open source tools for fluorescent imaging

Hamilton, Nicholas A. (2012) Open source tools for fluorescent imaging. Methods in Enzymology, 504 393-417. doi:10.1016/B978-0-12-391857-4.00020-3

Author Hamilton, Nicholas A.
Title Open source tools for fluorescent imaging
Journal name Methods in Enzymology   Check publisher's open access policy
ISSN 0076-6879
ISBN 978-0-12-391857-4
Publication date 2012-01-01
Year available 2012
Sub-type Article (original research)
DOI 10.1016/B978-0-12-391857-4.00020-3
Open Access Status
Volume 504
Start page 393
End page 417
Total pages 25
Place of publication Maryland Heights, United States
Publisher Academic Press
Language eng
Abstract As microscopy becomes increasingly automated and imaging expands in the spatial and time dimensions, quantitative analysis tools for fluorescent imaging are becoming critical to remove both bottlenecks in throughput as well as fully extract and exploit the information contained in the imaging. In recent years there has been a flurry of activity in the development of bio-image analysis tools and methods with the result that there are now many high-quality, well-documented, and well-supported open source bio-image analysis projects with large user bases that cover essentially every aspect from image capture to publication. These open source solutions are now providing a viable alternative to commercial solutions. More importantly, they are forming an interoperable and interconnected network of tools that allow data and analysis methods to be shared between many of the major projects. Just as researchers build on, transmit, and verify knowledge through publication, open source analysis methods and software are creating a foundation that can be built upon, transmitted, and verified. Here we describe many of the major projects, their capabilities, and features. We also give an overview of the current state of open source software for fluorescent microscopy analysis and the many reasons to use and develop open source methods.
Keyword Microscopy
Analysis software
Bio-image informatics
Fluorescent imaging
Open source
Q-Index Code C1
Q-Index Status Confirmed Code
Institutional Status UQ
Additional Notes Available online: 17 January 2012.

Document type: Journal Article
Sub-type: Article (original research)
Collections: Official 2013 Collection
Institute for Molecular Bioscience - Publications
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