You can simulate the sample design in the ModelSim software by using the commands shown in the following sample script:
vlib work # Create working directory
vlog /quartus/eda/sim_lib/apex20ke_atoms.v # Read the simulation library
# /quartus/ is the path to Quartus® Prime Standard Edition
vlog pllsource.vo # Compile Quartus® Prime Standard Edition output netlist
vlog plltest.v # Compile test fixture
vsim -t ps work.plltest # Simulate plltest with resolution in ps
add wave /plltest/* # Add the port signals to the waveform view
run 1000 ns # Run the simulation for 1000 ns