You can't see an atom, never mind subatomic particles, in the same way as you would looking down a microscope. The wavelength of light is far too large compared to the size of an atom.
However, using an electron microscope, you can get images like this of silicon nitride, where individual atoms of the molecule can be made out. However, this is based on electrons hitting the atom and a computer analysing the results, rather than light waves. Atoms are simply too small to be seen directly.
http://www.iatia.com.au/technology/samples/siliconNitride.asp
If you get atoms and smash them together at high speeds, then you can analyse the particles within the atom. You can study the electrical charge of electrons and protons by performing experiments such as Rutherford's classic nineteenth century experiments where he proved that an atom must have a negatively charged outer shell and a positively charged nucleus (see source).
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They are fuzzy with the best electron microscopes - that is because of quantum uncertainty and no matter how powerful a microscope we build, this can't be overcome. Heisenberg's Uncertainty Principle states that if something very small is moving, we can't know where it is. If we know where it is, we can't know how fast it is moving. This causes the fuzziness at very small scales. There is a probability that an electron could be in one position, or another position and instead of a point, you end up with a fuzzy probability of where the electron is likely to be.