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Computational Optical Sectioning Microscopy
The COSM open source
(COSMOS) software package is currently under development by the
Computational Imaging Research Laboratory (CIRL) led by Dr.Preza.
COSMOS has four platform-independent graphical user interfaces (GUIs)
developed using a visualization tool kit for PSF generation, intensity
estimation, image visualization and performance analysis. In the
estimation GUI there are currently 5 different algorithms for data
processing: the Depth Variant Expectation Maximization algorithm
[1], a linear least square algorithm
[2] , a linear maximum a posteriori
algorithm [3], the Jansen-van Cittert
algorithm [4], and the Expectation
Maximization algorithm [5]. Three out of
five algorithms and the PSF generation software were available in the
original XCOSM package developed for X-windows in the early 1990s and
disseminated by the PI and collaborators [6]. The COSMOS package replaces the XCOSM package
and provides new and upgraded capabilities.
References:
- Preza, C. and Conchello, J-A., “Depth-variant maximum-likelihood
restoration for three-dimensional fluorescence microscopy,†J. Opt.
Soc. Am. A., 21:1593-1601, 2004.
- Preza, C., Miller, M. I., Thomas, Jr., L. J., and McNally, J. G.,
“Regularized linear method for reconstruction of three-dimensional
microscopic objects from optical sections,†J. Opt. Soc. Am. A.,
9(2):219-228, 1992.
- Preza, C., Miller, M. I., and Conchello, J.-A., “Image
reconstruction for 3-D light microscopy with a regularized linear
method incorporating a smoothness prior,†in Biomedical Image
Processing and Biomedical Visualization, R. S. Acharya and D. B.
Goldgof, Eds., Proc. SPIE 1905:129-139, 1993.
- Agard, D. A., ‘‘Optical sectioning microscopy,’’ Annu. Rev.
Biophys. Bioeng., 13:191–219, 1984.
- Conchello, J.-A., "Super-resolution and convergence properties of
the expectation-maximization algorithm for maximum-likelihood
deconvolution of incoherent images", J. Opt. Soc. Am. A,
15:2609-2620, 1998.
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XCOSM software
package
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