This is the first part of my program, however I'd like the whole program to stop running and end, if , the choice is 'yes'. Because currently the code just keeps on running even after loading the saved model.

choice = questdlg('Would you like to load a saved spatial model?','Spatial Model','Yes','No, create new spatial model','No, create new spatial model');
if isequal(choice,'Yes')
    disp('A previously saved spatial model has been loaded into the system');
    load spatialModel.mat
else isequal(choice,'No, create new spatial model')
    disp('Starting a new spatial model~~~~~~~~~~~~~~~~~');  
end

Answer 1

[David Fletcher]

return should give control back to whatever invoked the script

choice = questdlg('Would you like to load a saved spatial model?','Spatial Model','Yes','No, create new spatial model','No, create new spatial model');
if isequal(choice,'Yes')
    disp('A previously saved spatial model has been loaded into the system');
    load spatialModel.mat
    return
else isequal(choice,'No, create new spatial model')
    disp('Starting a new spatial model~~~~~~~~~~~~~~~~~');  
end

[Youssef Barakat]

Thank you, this does the job.