A Matlab implementation for automatic segmentation with a graphical user interface.
Original paper: AutoCellSeg: robust automatic colony forming unit (CFU)/cell analysis using adaptive image segmentation and easy-to-use post-editing techniques (Khan, Torelli, Wolf, Gretz)
AutoCellSeg can run on all major operating systems. In each, AutoCellSeg can be installed either through a web installer or the user has to download the MATLAB runtime manually first, install it, and then execute the file in the corresponding folder. Please clone this entire project as the first step.
- option 1: execute the Windows_installer.exe file which will download the appropriate MATLAB runtime on its own and install the software as a program. Then just start the AutoCellSeg.
- option 2: first download MATLAB runtime v9.1 then execute AutoCellSeg.exe.
- option 1: execute the Linux_installer.install file which will download the appropriate MATLAB runtime on its own and install the software as a program. Then just start the AutoCellSeg.
- option 2: first download MATLAB runtime v9.1 and install it. Then execute the following in a command shell:
cd Linux
./run_AutoCellSeg.sh 'PATH-TO-THE-INSTALL-DIR-OF-MATLAB-RUNTIME'
with PATH-TO-THE-INSTALL-DIR-OF-MATLAB-RUNTIME being the folder in which the MATLAB runtime has been installed to including the folder with the version name. For example:
./run_AutoCellSeg.sh /usr/local/MATLAB/MATLAB_Runtime/v91
- option 1: execute the Mac_installer.app file which will download the appropriate MATLAB runtime on its own and install the software as a program. Then just start the AutoCellSeg.
- option 2: first download MATLAB runtime v9.1 and install it. Then execute AutoCellSeg.app.