[SciPy-User] ANN: iocbio.microscope - a Python deconvolution software

Pearu Peterson pearu.peterson@gmail....
Fri Aug 12 08:53:52 CDT 2011


We are proud to release a new package for deconvolving 3D microscope
images iocbio.microscope. It is a part of an open-source software
project iocbio from the Laboratory of Systems Biology in the Institute
of Cybernetics at Tallinn Technical University (http://sysbio.ioc.ee).

Iocbio.microscope software package allows to deconvolve microscope
images. In addition to the deconvolution program, the package includes
the set of tools that is required for processing images, estimation of
point spread function (PSF) and visualizing the results. This software
is written in Python and is released with an open-source license (BSD).

Homepage: http://code.google.com/p/iocbio/wiki/IOCBioMicroscope

Tutorial: http://code.google.com/p/iocbio/wiki/DeconvolutionTutorial

Iocbio API documentation:
http://sysbio.ioc.ee/download/software/iocbio/index.html

Sources and download: http://iocbio.googlecode.com

Iocbio is developed under Linux (ubuntu) but will also run under Windows 
(we provide installer for Windows users to ease the process of setting 
up the iocbio software as well as its prerequisites).

Mathematical background of implemented deconvolution algorithm, notes
and guidelines on selection of parameters for deconvolution and
application to real-life images are described in a recent paper

Laasmaa, M, Vendelin, M, Peterson, P (2011). Application of regularized
Richardson-Lucy algorithm for deconvolution of confocal microscopy
images. J. Microscopy. Volume 243,  Issue 2 , pages 124–140, August
2011:
http://onlinelibrary.wiley.com/doi/10.1111/j.1365-2818.2011.03486.x/full

Pearu Peterson


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