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EcoloSim is a Simulation Framework for simple spatial models in biology and ecology, in Java.
Typical problems are behavior of a herd of cattle, growth of microbe cells and other populations.
An Evolution Simulator of Single Cells in a Pond. This shows a crosssection of
water with sun shining from above. A single cell is dropped in and has various genes. The cells multipy and evolve. See Files above for download and screenshot.
Alife research platform to study the evolvability of different assembly-like computer languages. It's similar to Tierra and Avida but it's designed to be more general.
Jaybird is java-language based, source & xml & codebyte class inter-converting tool.
You can write your Envolvable Code with it;
You can make your computer write program itself;
You can run program without compiling time;
You can manage source as data
jrgp is a strong-typed Genetic Programming system, which features a graphical interface (gool) to setup and run GP-problems and a tool (fs-d) that greatly simplifies the definition of a GP-problem.
Info Sapient will be an Open Source, Common License 0.5, 100% Pure Java based program that is a mechanism for the expression and execution of business rules.
Featurama, superceding ProbePicker, is a bioinformatics program used to generate short probes from large datasets for use in DNA microarray experiments. A new project, BioSap, will extend the functionality of featurama.
A modular, database-backed system for 5 dimensional (5D) analytical biological microscopy and cell-based screening. Please note - we have moved. Please come visit us and download from our new site at http://cvs.openmicroscopy.org.uk
http://www.princeton.edu:80/pr/pwb/01/0326/1b.shtml
http://www.cs.princeton.edu/immsim/
Immsim is an immune system simulation used by Immunology students and researchers. Currently it is being used at Princeton University.
Cooperative effort to develop a Java-XML API and architecture to manage and share health concepts and processes eficiently. Includes a framework to develop healthcare applications (from PDA reminders to hospital information systems) quickly and easily.
Shred is a fast and scalable faceted data browser. The application allows users to navigate the data in an intuitive way and by any path they wish to take. Immediate intuitive information regarding the data is apparent.
cTAKES is a system for annotating clinical documents, built on the Apache UIMA framework .
cTAKES development has moved to apache.org.
Please see http:/ctakes.apache.org
helese is an easy to use HL7 message to database converter. It converts messages from your hospital information system (HIS) into an easily accessible database for further processing. helese is free open-source software written in Java.
XMAS supports a new kind of “sit forward” time series microarray analysis through visual interaction and interoperable operators. Domain knowledge is integrated directly into the system to aid users in their analysis.
The Integrative Biology VRE is a web-based graphical user interface and repository that provides an environment where biological simulation experiments can be constructed without the need for any knowledge of unix, cluster computing, or shell scripting.
Before year 2045, we want to create a "software development lab" that will allow to write "from scratch" the DNA of a creature, the "content" of it's first cell, and the components of the solution in which it will grow, to simulate it's life.