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TRMSim-WSN (Trust and Reputation Models Simulator for Wireless Sensor Networks) is a Java-based simulator aimed to test Trust and Reputation models for WSNs. It provides several Trust and Reputation models and new ones can be easily added.
jME Physics System provides an interface between jME (Java Monkey Engine) and ODE (Open Dynamics Engine). It sits on top of a slightly modified version of odejava, and provides a way to very easily set up a physics world and add objects to it.
LiNNS is not just a Neural Network Simulator, but a Neural Network System - a framework which covers the full lifecycle of a neural network, from design and research till usage in an external application.