Microscopy Image Browser License

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Contents

Developed during 2010-2017 by
Core developer:
Ilya Belevich
Developers:
Merja Joensuu, Darshan Kumar, Helena Vihinen and Eija Jokitalo

Electron Microscopy Unit
Institute of Biotechnology
PO Box 56 (Viikinkaari 9)
00014, University of Helsinki
Finland

GPL license of Microscopy Image Browser

Microscopy Image Browser (MIB) a handy tool for image management
Copyright (c) 2010-2017
Ilya Belevich, Merja Joensuu, Darshan Kumar, Helena Vihinen and Eija Jokitalo
http://mib.helsinki.fi

This program is free software; you can redistribute it and/or modify it under the terms of the < http://www.gnu.org/licenses/gpl-2.0.html GNU General Public License> as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version.

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

See the GNU General Public License for more details .

You should have received a copy of the GNU General Public License along with this program; if not, write to the Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.

EXTERNAL PACKAGES

Microscopy Image Browser as a bundle is licensed under the GPL, with exceptions for plugins and other components. This section lists the license under which additional components are released. See also the Acknowledgements section

Abbreviations: * FreeBSD, Berkeley Software Distribution, 2-clause license, GPL compatible * GPL, GNU General Public License, version 2 * ModifiedBSD, Berkeley Software Distribution, 3-clause license, GPL compatible * MIT, a free software license originating at the Massachusetts Institute of Technology, GPL compatible * ND, no data

Name Author(s) Contact License, Year MIB
version
Accurate Fast Marching Dirk-Jan Kroon, University of Twente via Matlab Exchange FreeBSD,
2011
0.x-2.x
ANISODIFF Peter Kovesi web site MIT,
2000-2002
0.x-2.x
Bio-Formats Melissa Linkert, Curtis Rueden et al. web site GPL,
2002-2013
0.x-2.x
bwdistsc, 3D Euclidean distance transform for variable data aspect ratio Yuriy Mishchenko, Toros University via Matlab Exchange FreeBSD,
2007-2013
0.x-2.x
DrawRegionBoundaries Peter Kovesi
Centre for Exploration Targeting, School of Earth and Environment, The University of Western Australia
author's website MIT,
2013
0.x-2.x
drifty_shifty_deluxe Joshua D. Sugar
Sandia National Laboratories, Livermore, CA
via Matlab Exchange Custom,
2014
0.x-2.x
Export_fig Oliver Woodford and Yair Altman via Matlab Exchange ModifiedBSD,
2014-2015
0.x-2.x
Extrema functions Carlos Adrian Vargas Aguilera, Universidad de Guadalajara via Matlab Exchange ND,
2006-2007
0.x-1.x
Fast 3D/2D Region Growing (MEX) Christian Wuerslin, Stanford University via Matlab Exchange ModifiedBSD,
2013-2015
0.x-2.x
Fast/Robust Template Matching
used in MIB 1.22 and earlier
Dirk-Jan Kroon, University of Twente via Matlab Exchange FreeBSD,
2009-2011
0.x-1.22
FindJObj - find java handles of Matlab graphic objects Yair Altman via Matlab Exchange FreeBSD,
2007-2013
0.x-2.x
Hardware accelerated 3D viewer for MATLAB Jean-Yves Tinevez, Institut Pasteur via Matlab Exchange FreeBSD,
2011
0.x-2.x
Hessian based Frangi Vesselness filter Marc Schrijver and Dirk-Jan Kroon, University of Twente via Matlab Exchange FreeBSD,
2001-2009
0.x-2.x
Highly portable JSON-input parser Nedialko via Matlab Exchange FreeBSD,
2009
0.x-2.x
IceImarisConnector Aaron C. Ponti, ETH Zurich web link GPL,
2013
0.x-2.x
Image Edge Enhancing Coherence Filter Dirk-Jan Kroon, Pascal Getreuer University of Twente via Matlab Exchange FreeBSD,
2009
0.x-1.x
Image Measurement Utility Jan Neggers, Eindhoven Univeristy of Technology via Matlab Exchange FreeBSD,
2009-2014
1.x-2.x
ImageViewer Jiro Doke, Mathworks via Matlab Exchange ModifiedBSD,
2010
0.x-2.x
ImClipboard Jiro Doke, MathWorks via Matlab Exchange ModifiedBSD,
2010
0.x-2.x
ImGaussian Dirk-Jan Kroon, University of Twente via Matlab Exchange FreeBSD,
2009
0.x-2.x
Local Normalization Guanglei Xiong at Tsinghua University, Beijing via Matlab Exchange ND,
2005
0.x-1.x
MatTomo, a part of PEET Boulder Laboratory for 3-D Electron Microscopy of Cells web site GPL,
2006-2010
0.x-2.x
MAXFLOW/MINCUT algorithm v2.22 Yuri Boykov, University of Western Ontario and Vladimir Kolmogorov, Microsoft research, Cambridge web site GPL,
2001-2014
0.x-2.x
MAXFLOW/MINCUT Matlab wrapper Michael Rubinstein, Google via Matlab Exchange FreeBSD,
2008
0.x-2.x
Membrane detection with Random Forest Verena Kaynig, Harvard School of Engineering and Applied Sciences web link GPL,
2010
0.x-2.x
MTOC++ Martin Drohmann (Universität Münster), Daniel Wirtz (Universität Stuttgart) via Matlab Exchange FreeBSD,
2011-2013
0.x-2.x
NRRD Format File Reader Jeff Mather, the MathWorks, Inc. via Matlab Exchange ModifiedBSD,
2012
0.x-2.x
Projects:MATLABSlicerExampleModule, to read NRRD format John Melonakos web link GPL,
2012
0.x-2.x
Random Forest Matlab Abhishek Jaiantilal web link GPL,
2012
0.x-2.x
Region Adjacency Graph (RAG) David Legland, INRA, France via Matlab Exchange FreeBSD,
2007-2013
0.x-2.x
RegionProps3 Chaoyuan Yeh via Matlab Exchange FreeBSD,
2014
0.x-2.x
Render Dirk-Jan Kroon, Focal Machine Vision en Optical Systems via Matlab Exchange FreeBSD,
2008-2011
1.x-2.x
Render RGB text over RGB or Grayscale Image Davide Di Gloria, Universita di Genova via Matlab Exchange FreeBSD,
2010
0.x-2.x
SLIC (Simple Linear Iterative Clustering) Radhakrishna Achanta, Appu Shaji, Kevin Smith, Aurelien Lucchi, Pascal Fua, and Sabine Süsstrunk
Ecole Polytechnique Federale de Lausanne (EPFL), Switzerland
authors' website ModifiedBSD,
2015
0.x-2.x
STLWRITE Sven Holcombe, University of Michigan via Matlab Exchange FreeBSD,
2008-2015
1.x-2.x
STRUCT2XML Wouter Falkena, Delft University of Technology via Matlab Exchange FreeBSD,
2010
0.x-2.x
VIEW3D Torsten Vogel via Matlab Exchange FreeBSD,
1999
0.x-2.x
XLSWRITE (improved) Barry Dillon, AON Insurance Brokers via Matlab Exchange FreeBSD,
2010
0.x-2.x
XML2STRUCT Wouter Falkena, Delft University of Technology via Matlab Exchange FreeBSD,
2010
0.x-2.x

HOW TO CITE

In November 2015 paper describing Microscopy Image Browser was accepted for publication in PLOS Biology, please cite it whenever referring to the software (the reference will be updated as soon as the article is published):

Microscopy Image Browser: A platform for segmentation and analysis of multidimensional datasets
I. Belevich, M. Joensuu, D. Kumar, H. Vihinen and E. Jokitalo
PLOS Biology, PLoS Biology 2016 Jan 4;14(1):e1002340. doi: 10.1371/journal.pbio.1002340

We appreciate if you let us know by email (ilya.belevich -=@=- helsinki.fi) when you cite MIB. This helps us to develop and maintain the program.

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