OMPL is a lightweight, thread-safe, easy to use, and extensible library for sampling-based motion planning. The code is written in C++, includes Python bindings and is released under the BSD license. OMPL is also integrated with ROS. On top of the OMPL library, we have developed OMPL.app: a GUI for rigid body motion planning that allows users to load a variety of mesh formats that define a robot and its environment, define start and goal states, and play around with different planners.
FASST Live is a web server for identifying clusters of proteins that share local structural similarity.
DINC is a web server for docking large ligands.
A web server for finding metabolic pathways by using atom tracking.
A web server for matching 3D structural motifs in proteins against the proteins in the Protein Data Bank. With a plugin for Chimera the match results can be visualized.
OOPSMP is a package for motion planning that is easy to extend, robust, and efficient. It can be used for motion planning research or as a teaching tool. This package is still available for download, but is no longer further developed (except for minor bug fixes).
A web server for reconstructing all-atom protein structures from coarse grain structures.
The Rice Wireless Localization Toolkit can be used to estimate the position of a device based on the signal strength of nearby 802.11 wireless access points. While prior systems have required significant investments of human labor to build a detailed signal map, our system can be trained by spending less than one minute per office or region, and can then localize the device with very high accuracy after only two or three signal strength measurements.
This is not strictly speaking software, but we have also developed some educational material on structural computational biology and bioinformatics. See a short course module Geometric Methods in Structural Computational Biology which can be used under the license information specified in the same page.