Quartus® Prime Pro Edition User Guide: Third-party Synthesis
2.8. Simulation and Formal Verification
If area and timing requirements are satisfied, use the files generated by the Quartus® Prime software to program or configure the Altera device. If your area or timing requirements are not met, you can change the constraints in the Synplify software or the Quartus® Prime software and rerun synthesis. Altera recommends that you provide timing constraints in the Synplify software and any placement constraints in the Quartus® Prime software. Repeat the process until area and timing requirements are met.
You can also use other options and techniques in the Quartus® Prime software to meet area and timing requirements, such as WYSIWYG Primitive Resynthesis, which can perform optimizations on your .vqm netlist within the Quartus® Prime software.