len,
Pretty simple. First you need to "calibrate" to find out exactly what magnifications your microscope provides. This can be done using a stage micrometer, which is a special slide with extremely accurate finely spaced lines. Then you can use either an eyepiece reticle, or (as I do) measure from the image. Once you know the magnification and the sensor size (and pixel dimensions) you can do it a number of ways. There is software for microscopy that can provide measuring capabilities. I simply use the ruler in Photoshop to get the dimension in pixels and relate it to this spreadsheet:
http://www.krebsmicro.com/scale_bars.xls
BJ,
Well, I often look enviously at the resolution of SEM, especially with subjects like pollen and empty diatom frustules

. But there's nothing quite like viewing with natural colors and seeing live subjects move about.
Franz,
No special reason. I like b+w, and since this was an empty frustule there was absolutely no color information to portray.