You should be able to use most emulators one way or another...many emulators can run at the emulated systems native resolution(s), which is ideal. Failing that, most are able to operate at 640x480, which is interlaced using the ArcadeVGA. Of course this is not as good, but I have run some emulators like this and it has worked very well.
I *think* Stella, the 2600 emulator can run at native resolutions, not sure about any NES emus. Give some a try
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