You should try Cell Profiler. It is free open source software that will batch process images for you. You can specify what parameters you want to quantify. I used it for quantifying cell density and blood vessel density in the cerebellum. It worked great!

http://www.cellprofiler.org/

If you want to do the same thing manually, I would just use ImageJ. The cell counter tool allows you to easily count cells of various types.

http://imagej.nih.gov/ij/

Good Luck!

Hi Bhesh

You should try ImageJ. It´s very good for that. 

Best regards

For small number of samples, where you have to distinguish only in a few types of cells (for example exocrine versus endocrine, such as beta cells), Image J (with an appropriate plug-in for area) will do fine. However, if you are interested in detailed morphometry using information from serial sections of pancreas, use CellProfiler/Analyst as suggested by Leslie. The latter can deal with much larger data set and can almost be automated (if you have the right equipment).