ScanImage: flexible software for operating laser scanning microscopes

Pologruto, T. A., Sabatini, B. L., Svoboda, K. (May 2003) ScanImage: flexible software for operating laser scanning microscopes. Biomedical Engineering Online, 2. p. 13. ISSN 1475-925X (Electronic)

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URL: http://www.ncbi.nlm.nih.gov/pubmed/12801419
DOI: 10.1186/1475-925X-2-13.

Abstract

BACKGROUND: Laser scanning microscopy is a powerful tool for analyzing the structure and function of biological specimens. Although numerous commercial laser scanning microscopes exist, some of the more interesting and challenging applications demand custom design. A major impediment to custom design is the difficulty of building custom data acquisition hardware and writing the complex software required to run the laser scanning microscope. RESULTS: We describe a simple, software-based approach to operating a laser scanning microscope without the need for custom data acquisition hardware. Data acquisition and control of laser scanning are achieved through standard data acquisition boards. The entire burden of signal integration and image processing is placed on the CPU of the computer. We quantitate the effectiveness of our data acquisition and signal conditioning algorithm under a variety of conditions. We implement our approach in an open source software package (ScanImage) and describe its functionality. CONCLUSIONS: We present ScanImage, software to run a flexible laser scanning microscope that allows easy custom design.

Item Type: Paper
Uncontrolled Keywords: Equipment Design Image Enhancement/methods Microscopy, Confocal/ instrumentation Research Support, U.S. Gov't, P.H.S. Signal Processing, Computer-Assisted Software Software Design User-Computer Interface
Subjects: bioinformatics > genomics and proteomics > computers
Investigative techniques and equipment
Investigative techniques and equipment > optical devices
bioinformatics > genomics and proteomics > computers > computer software
Investigative techniques and equipment > optical devices > lasers
Investigative techniques and equipment > optical devices > microscope techniques or equipment
CSHL Authors:
Communities: CSHL labs > Svoboda lab
Depositing User: Matt Covey
Date: 17 May 2003
Date Deposited: 11 Jun 2013 20:44
Last Modified: 11 Jun 2013 20:44
PMCID: PMC161784
Related URLs:
URI: http://repository.cshl.edu/id/eprint/27940

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