There are many ways for enumeration, localization or characterization of spores. Most of them are done by fluorescence microscopy or specific spore stains. Others can be done by quantitation by Raman spectra of Ca(2+)-dipicolinic acid. You can also treat samples by heating them at 80°C for 15 min, prepare a stain and count them at the microscope. Please, take a look at a basic microbiological techniques book.