the sample 306 sample 306 may include a biological sample including fluorescent markers that are expressed by genes linked to genes of interest or including inorganic markers that selectively attach to particular intracellular components sample 306 may also include a biological sample including dyes or other inorganic markers such as quantum dots that are functionalized to enable selective attachment to particular intracellular components sample 306 sits on a sample stage at a sample position that defines a sample plane a charged particle column 302 such as an electron beam column or a focused ion beam column generates a beam 304 of charged particles that is focused by column 302 onto the surface of a sample 306 at a location 308 electrons in the beam typically have energies of between 1 000 ev and 25 000 ev ions typically have energies of between 5 000 ev and 50 000 ev an x y beam deflector 310 which may comprise magnetic coils electrostatic multipoles or a combination of both magnetic coils and electrostatic multipoles is configured to move the beam 304 around on the surface of the sample 306 typically in an x y raster pattern for imaging as in fig2 in this first embodiment 300 of the invention the sample 306 is assumed.