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Statistics101 is an Integrated Development Environment (IDE) that uses a simple, powerful language called “Resampling Stats” to develop Monte Carlo programs to analyze and solve statistical problems. The original Resampling Stats language and computer program were developed by Dr. Julian Simon and Peter Bruce as a new way to teach Statistics to social science students. Of course, social science students aren't the only ones who can benefit. Anyone who wants to learn statistics will find that...
A modeling and simulation tool for Routing problems on Graphs, tccrouter is a java desktop application that provides a 2d map for building graphs and simulating a variety of real world routing solutions: Shortest path, TSP, VRP, VRP-TW. Check Git repository. https://github.com/guilhebl/routerapp
The Electronic Laboratory Notebook (ELN) - a collaborative, web-based analog of the paper notebook. The ELN can be used to share and record text, images, 3-D molecular structures, live graphs, etc. and can be extended to support additional data types.
The ChemSense Studio software supports the creation and sharing of text, images, graphs, drawings, and storyboard animations of chemical processes. The ChemSense Animator can be run as a separate, stand-alone application. See http://chemsense.sri.com
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yades - "yet another differential equation solver". This Java application solves ordinary differential equations (ODE) numerically and displays the results as tables, graphs, direction fields or vector fields.