External Licenses¶
Microscopy Image Browser (MIB) adapts code from multiple open-source projects. Below are the licenses for the external functions and libraries used in MIB.
Abbreviations¶
- Apache-2.0: Apache 2.0 license
- CC BY-ND: Attribution-NoDerivs 3.0 Unported
- FreeBSD: Berkeley Software Distribution, 2-clause license, GPL compatible
- GPLv2: GNU General Public License, version 2
- GPLv3: GNU General Public License, version 3
- LGPL: GNU Lesser General Public License
- 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
External Packages¶
| Name | Author(s) | Contact | License, Year | MIB Version |
|---|---|---|---|---|
| Accurate Fast Marching | Dirk-Jan Kroon, University of Twente | via MATLAB Exchange | FreeBSD, 2011 | 0.x- |
| ANISODIFF | Peter Kovesi | web site | MIT, 2000-2002 | 0.x-2.x |
| Bio-Formats | Melissa Linkert, Curtis Rueden et al. | web site | GPLv2, 2002-2013 | 0.x- |
| BM3D v2.00/2.01 and BM4D v3.2, block-matching and 3D/4D filtering | Kostadin Dabov, Aram Danielyan, Matteo Maggioni, Alessandro Foi, Tampere University of Technology, Finland | web site | Custom, non-commercial, 2006-2015 | 2.22- |
| bwdistsc, 3D Euclidean distance transform for variable data aspect ratio | Yuriy Mishchenko, Toros University | via MATLAB Exchange | FreeBSD, 2007-2013 | 0.x- |
| Custom GINPUT | Jiro Doke, MathWorks | via MATLAB Exchange | ModifiedBSD, 2016 | 2.82-2.x |
| Cell migration in scratch wound assays | Constantino Carlos Reyes-Aldasoro, City, University of London | via MATLAB Exchange | GPLv3, 2018 | 2.65- |
| DnD_uifigure: drag & drop functionality for AppDesigner components | Xiangrui Li, The Ohio State University | via MATLAB Exchange | MIT, 2020-2023 | 2.90-2.x |
| Drag & Drop functionality for JAVA GUI components | Maarten van der Seijs, Delft University of Technology, the Netherlands | via MATLAB Exchange | FreeBSD, 2015 | 2.61-2.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- |
| Drifty_shifty_deluxe | Joshua D. Sugar, Sandia National Laboratories, Livermore, CA | via MATLAB Exchange | Custom, 2014 | 0.x- |
| Export_fig | Oliver Woodford and Yair Altman | via MATLAB Exchange | ModifiedBSD, 2014-2015 | 0.x- |
| Extrema functions | Carlos Adrian Vargas Aguilera, Universidad de Guadalajara | via MATLAB Exchange | FreeBSD, 2006-2007 | 0.x-1.x |
| Fast 3D/2D Region Growing (MEX) | Christian Wuerslin, Stanford University | via MATLAB Exchange | ModifiedBSD, 2013-2015 | 0.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 |
| Fstack - extended depth-of-field image | Said Pertuz, Universitat Rovira i Virgili, Tarragona, Spain | via MATLAB Exchange | ModifiedBSD, 2013 | 2.51- |
| HistThresh toolbox | Antti Niemistö, Tampere University of Technology, Finland | Github | GPLv3, 2014 | 2.51- |
| Hardware accelerated 3D viewer for MATLAB | Jean-Yves Tinevez, Institut Pasteur | via MATLAB Exchange | FreeBSD, 2011 | 0.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 | GPLv2, 2013 | 0.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 University of Technology | via MATLAB Exchange | FreeBSD, 2009-2014 | 1.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- |
| IMGAUSSIAN | Dirk-Jan Kroon, University of Twente | via MATLAB Exchange | FreeBSD, 2009 | 0.x-2.x |
| Local Normalization | Guanglei Xiong, Tsinghua University, Beijing | via MATLAB Exchange | FreeBSD, 2005 | 0.x-1.x |
| MatGeom | David Legland, INRA, France | web site | FreeBSD, 2011- | 2.3- |
| MatTomo, a part of PEET | Boulder Laboratory for 3-D Electron Microscopy of Cells | web site | GPLv2, 2006-2010 | 0.x- |
| MAXFLOW/MINCUT algorithm, v2.22 | Yuri Boykov, University of Western Ontario and Vladimir Kolmogorov, Microsoft Research, Cambridge | web site | GPLv2, 2001-2014 | 0.x- |
| MAXFLOW/MINCUT MATLAB wrapper | Michael Rubinstein, Google | via MATLAB Exchange | FreeBSD, 2008 | 0.x- |
| MkDocs | Tom Christie & MkDocs Team | author's website | FreeBSD, 2014 | 2.91-2.x |
| Membrane detection with Random Forest | Verena Kaynig, Harvard School of Engineering and Applied Sciences | author's website | GPLv2, 2010 | 0.x- |
| MIJ: Running ImageJ and Fiji within MATLAB | Daniel Sage, Dimiter Prodanov, Jean-Yves Tinevez, and Johannes Schindelin, EPFL Lausanne | via MATLAB Exchange | ModifiedBSD, 2012-2017 | 2.6- |
| 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- |
| OMERO MATLAB bindings | The Open Microscopy Environment | OME website | GPLv2, 2019 | 0.x- |
| Patch Normals | Dirk-Jan Kroon, University of Twente | via MATLAB Exchange | FreeBSD, 2009 | 2.22-2.x |
| Prettify MATLAB html | Harry Dymond, University of Bristol | via MATLAB Exchange | ModifiedBSD, 2020 | 2.83-2.91 |
| Projects:MATLABSlicerExampleModule, to read NRRD format | John Melonakos | web link | ModifiedBSD, 2012 | 0.x- |
| Random Forest MATLAB | Abhishek Jaiantilal | web link | GPLv2, 2012 | 0.x- |
| Region Adjacency Graph (RAG) | David Legland, INRA, France | via MATLAB Exchange | FreeBSD, 2007-2013 | 0.x- |
| regionprops3 | Chaoyuan Yeh, University of Southern California | via MATLAB Exchange | FreeBSD, 2014 | 0.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, Università di Genova | via MATLAB Exchange | FreeBSD, 2010 | 0.x-2.x |
| Segment-anything, models | Kirillov A, Mintun E, Ravi N, Mao H, Rolland C, Gustafson L, Xiao T, Whitehead S, Berg AC, Lo W-Y, Dollar P, Girshick R, Meta AI | authors' website | Apache-2.0, 2023 | 2.9- |
| Segment-anything 2, models | Ravi N, Gabeur V, Hu Y-T, Hu R, Ryali C, Ma T, Khedr H, Rädle R, Rolland C, Gustafson L, Mintun E, Pan J, Alwala KV, Carion N, Wu C-Y, Girshick R, Dollár P, Feichtenhofer C, Meta AI | authors' website | Apache-2.0, 2024 | 2.91- |
| Segment-anything for Microscopy, models | Archit A, Nair S, Khalid N, Hilt P, Rajashekar V, Freitag M, Gupta S, Dengel A, Ahmed S, Pape C | GitHub | MIT, 2023 | 2.9- |
| 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- |
| Sphinx | Georg Brandl, Adam Turner and the Sphinx team | web site | FreeBSD, 2007-2025 | 2026.x- |
| sphinx-immaterial | Jeremy Maitin-Shepard and the Sphinx-Immaterial authors | GitHub | MIT, 2021 | 2026.x- |
| sphinxcontrib-matlabdomain | Mark Mikofski, Jørgen Cederberg and the sphinxcontrib-matlabdomain team | GitHub | FreeBSD, 2009-2024 | 2026.x- |
| STLWRITE | Sven Holcombe, University of Michigan | via MATLAB Exchange | FreeBSD, 2008-2015 | 1.x- |
| STRUCT2XML | Wouter Falkena, Delft University of Technology | via MATLAB Exchange | FreeBSD, 2010 | 0.x- |
| TEEM.DLL for MATLABSlicerExampleModule | Gordon Kindlmann | authors' website | LGPL plus static linking exception, 2012 | 0.x- |
| UIGETFILE_N_DIR | Tiago / Peugas | via MATLAB Exchange | FreeBSD, 2011 | 2.6- |
| VIEW3D | Torsten Vogel | via MATLAB Exchange | FreeBSD, 1999 | 0.x-2.x |
| VIOLIN | Holger Hoffmann | via MATLAB Exchange | FreeBSD, 2015 | 2.65-2.x |
| VTKPNG.DLL for MATLABSlicerExampleModule | Ken Martin, Will Schroeder, Bill Lorensen | authors' website | ModifiedBSD, 2012 | 0.x- |
| XLWRITE: Generate XLS(X) files without Excel on Mac/Linux/Win | Alec de Zegher, NV Bekaert SA | via MATLAB Exchange | FreeBSD, 2013 | 2.1- |
| XLSWRITE Improved | Barry Dillon, AON Insurance Brokers | via MATLAB Exchange | FreeBSD, 2010 | 0.x- |
| XML2STRUCT | Wouter Falkena, Delft University of Technology | via MATLAB Exchange | FreeBSD, 2010 | 0.x- |
| zarr-matlab | Alessandro Motta, Max Planck Institute for Brain Research; scalable minds | GitHub | MIT, 2020-2025 | 2026.x- |
| zensical | Zensical LLC | GitHub | MIT, 2025-2026 | 2026.x- |
| Some icons | Icons8.com | website | CC BY-ND, 3.0, 2018 | 2.22- |
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