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If you find any bug, have any problem with the installation or would like to contribute to further developing this software, please write an email to Micha Hersch. If you use this software for research purposes, please be kind enough to mention it in your scientific publications by citing the Plant Cell paper above.
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This software is provided "as is", in the hope that it will be useful but without any warranty of any kind. Software trying to achieve similar goals include HypoTrace and HyDe both of which are matlab-based and not open-source. Refer to the manual for usage and more detailed instructions. Double click on hypoPhen file in this same folder, will launch the software on the test images. Unzip both files and put the "images" folder in the "HypoPhen_win" folder. Refer to the manual for usage and more detailed instructions.įor Windows 7, you can download the windows executable and the test images. Unzip the test images and put the "images" folder in the hypoPhen.app/Contents/MacOS/ folder (yes, you have to enter the hypoPhen application folder). Those images were kindly provided by Emilie Demarsy.įor Mac OS, you can download the dmg file and the test images. You can also download a small set of hypocotyl test images to test the software.
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The manual explains how to install and use the software. There is also a dmg file for MacOS (version 0.4) Let Micha know if you need it for a 64 bits architecture. Note that this executable is for the standard x86 (32 bits) architectures. The windows executable of version 0.4 (along with required dlls) for Windows 7 is here. The latest code is available on sourceforge You can download the C++ source code (version 0.4). Windows and Mac user can directly download the executable file and launch it from the command prompt You also need a two button mouse to use the software.
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Hypophen works on Linux, Mac OS X version 10.6 or later and Windows.įor Linux, it needs the OpenCV library (free) and must be compiled from source, The use of CMake (also free) makes this rather straightforward. Here is another movie showing the analysis from scratch of the 12 example images of 5 hypocotyls, including the manual calibration procedure. In those 20 seconds, five frames (70 hypocotyls) are processed. Here is a movie showing in real time an excerpt from the semi-automated processing of images of 14 hypocotyls.