Journal article
SIMToolbox: a MATLAB toolbox for structured illumination fluorescence microscopy.
- Křížek P First Faculty of Medicine, Charles University in Prague, Prague 12800, Czech Republic.
- Lukeš T Department of Radioelectronics, Faculty of Electrical Engineering, Czech Technical University in Prague, Prague 16627, Czech Republic, Laboratoire d'Optique Biomédicale, École Polytechnique Fédérale de Lausanne, Lausanne CH-1015, Switzerland and.
- Ovesný M First Faculty of Medicine, Charles University in Prague, Prague 12800, Czech Republic.
- Fliegel K Department of Radioelectronics, Faculty of Electrical Engineering, Czech Technical University in Prague, Prague 16627, Czech Republic.
- Hagen GM UCCS center for the BioFrontiers Institute, University of Colorado at Colorado Springs, Colorado Springs, CO 80918, USA.
- 2015-10-09
Published in:
- Bioinformatics (Oxford, England). - 2016
Actin Cytoskeleton
Fluorescence
Hep G2 Cells
Humans
Image Processing, Computer-Assisted
Imaging, Three-Dimensional
Lighting
Microscopy, Fluorescence
Software
English
UNLABELLED
SIMToolbox is an open-source, modular set of functions for MATLAB equipped with a user-friendly graphical interface and designed for processing two-dimensional and three-dimensional data acquired by structured illumination microscopy (SIM). Both optical sectioning and super-resolution applications are supported. The software is also capable of maximum a posteriori probability image estimation (MAP-SIM), an alternative method for reconstruction of structured illumination images. MAP-SIM can potentially reduce reconstruction artifacts, which commonly occur due to refractive index mismatch within the sample and to imperfections in the illumination.
AVAILABILITY AND IMPLEMENTATION
SIMToolbox, example data and the online documentation are freely accessible at http://mmtg.fel.cvut.cz/SIMToolbox.
CONTACT
ghagen@uccs.edu
SUPPLEMENTARY INFORMATION
Supplementary data are available at Bioinformatics online.
SIMToolbox is an open-source, modular set of functions for MATLAB equipped with a user-friendly graphical interface and designed for processing two-dimensional and three-dimensional data acquired by structured illumination microscopy (SIM). Both optical sectioning and super-resolution applications are supported. The software is also capable of maximum a posteriori probability image estimation (MAP-SIM), an alternative method for reconstruction of structured illumination images. MAP-SIM can potentially reduce reconstruction artifacts, which commonly occur due to refractive index mismatch within the sample and to imperfections in the illumination.
AVAILABILITY AND IMPLEMENTATION
SIMToolbox, example data and the online documentation are freely accessible at http://mmtg.fel.cvut.cz/SIMToolbox.
CONTACT
ghagen@uccs.edu
SUPPLEMENTARY INFORMATION
Supplementary data are available at Bioinformatics online.
- Language
-
- English
- Open access status
- closed
- Identifiers
-
- DOI 10.1093/bioinformatics/btv576
- PMID 26446133
- Persistent URL
- https://sonar.ch/global/documents/16340
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