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Welcome to the OMEGA wiki! This wiki is under construction and will get more documentation as the time goes on.
To install OMEGA, extract the contents of the zip-file (if you downloaded the release) and put the OMEGA-folder and all its subfolders to MATLAB/Octave path. Finally run install_mex. When using git clone, the process is the same. Installation on Octave is identical to that of MATLAB.
GATE users should use the gate_main.m file to reconstruct GATE data. For non-GATE users, the file you should start with is main_nongate.m. For computing the forward and/or backward projections use forward_backward_projections_example.m. For custom (gradient-based) priors, use custom_prior_test_main.m. A more simplified main-file for GATE data (simple OSEM reconstruction) is available in gate_main_simple.m. Inveon users should use Inveon_PET_main.m.
A GATE example with GATE macros is available in exampleGATE-folder. Simply run the GATE macros as a GATE simulation (GATE material database needs to be in the same folder) and then run the gate_main_example-file to reconstruct the data. By default, ASCII data is used in the reconstruction. This example is based on both benchPET and the cylindrical PET example found from https://opengate.readthedocs.io/en/latest/defining_a_system_scanner_ct_pet_spect_optical.html#cylindricalpet
exampleGATE also contains macros for normalization.
When using GATE data, all the output files of the specified format will be read in the specified folder. E.g. if you select ASCII data, all .dat-files with Coincidences in the file name will be loaded from the specified folder, with LMF all .ccs files and with ROOT all .root files.
Example MAT-files for non-GATE situation can be found from: 
Example Inveon data is available from: . The Inveon_PET_main.m file can be used automatically for this data.
For a short tutorial in image reconstruction in OMEGA see Tutorial
For help on using the individual main-fies or the various functions see Function help
If you want to extract GATE scatter, randoms and/or trues data to MATLAB see Extracting GATE scatter, randoms and trues data
For recommendations and things to watch out, see Useful information
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