ParaCountStudio has been developed to aid biologists needing to count large numbers of cells. It is a computer program written in Java that counts the number of cells that appear in an image, assuming a round cell shape and some degree of cell separation (ie. not tissues). The program has specifically been designed to distinguish red blood cells infected (or not) with malaria and stained with Giemsa, but the program is quite versatile and may work in a variety of other situations.

For a more detailed explanation of how to use the program, please see the help pages provided with the program. There is a step-by-step example instruction within those pages.


To download the program, save this file:, which is version 3.1.0. Unzip this and you'll have 3 files:
  1. paraCount3.jar: the program
  2. a zipped directory of some images
  3. settings.txt: a sample settings file for the provided images

You'll need to have a J2SE Java Runtime Environment set up on your computer. If you have a Mac, it will need to be OS X, as previous versions do not provide recent enough Java requirements: "The latest Mac OS Runtime for Java on Mac OS 9 provided a 1.1.8 Java VM. There are no plans to bring any versions of J2SE to Mac OS 9."

To start the program, double-click on the file icon, or start it from the command line with:
java -jar -Xms64M -Xmx256M paraCount3.jar

Source files

If you'd like to edit this program, you may do so under the terms of the GNU General Public License. Download the source files here and work your magic.

This will probably be the final version of ParaCountStudio produced at the WEHI. This was written by Suzanne J Thomas.

Windows icon

If you're using a PC and plan to have a shortcut to the program on your desktop, you can save this icon and change from the Windows default in the shortcut's properties menu.