SRmapper: for aligning short reads from
next-generation sequencing experiments to referenece genomes
no longer actively maintained:
UHBD/SIESTA: coupling between the University of Houston
Brownian Dynamics program (UHBD) and the quantum mechanical code SIESTA.
(Mingliang Wang and Chung F. Wong)
BDI: Brownian dynamics simulation of ions surrounding
biomolecules. (Wenbin Yu, Chung F. Wong, John Zhang, David Cerutti, and J.
Helicity: predicting helical segments in proteins by
using the helix-coil transition theory with knowledge-based potentials.
(Gauri Misra and Chung F. Wong)
GROMOS87 extension to perform molecular sensitivity
analysis and to simulate energy flow in proteins. (Chung F. Wong, Qiang
Wang, and Herschel Rabitz)
RXN1D/VEDA: Extension of the RXN1D code developed in
Professor John C. Light's laboratory to study the vibrational excitation and
dissociation attachment of triatomic molecules upon electron impact (Chung
F. Wong and John C. Light)
VEDA: Simulate the vibrational excitation and
dissociation attachment of diatomic molecules upon electron impact by using
the R-matrix propagation method (Chung F. Wong and John C. Light)