BiPad
:: DESCRIPTION
The Bipad Server is a web interface to predict sequence elements embedded within unaligned sequences. Either a bipartite model, consisting of a pair of one-block position weight matrices (PWM’s) with a gap distribution, or a single PWM matrix for contiguous single block motifs may be produced. The Bipad program performs multiple local alignment by entropy minimization and cyclic refinement using a stochastic greedy search strategy. The best models are refined by maximizing incremental information contents among a set of potential models with varying half site and gap lengths.
::DEVELOPER
Dr. Chengpeng Bi (send comments to: cbi at cmh dot edu)
:: SCREENSHOTS
N/A
:: REQUIREMENTS
- Linux / MacOsX
- GNU C++ w
- C++ STL library
:: DOWNLOAD
Contact: Dr. Stephen ONeil (send request to: soneil at cmh dot edu)
:: MORE INFORMATION
Citation
BMC Bioinformatics 2006, 7:76
BIPAD: A web server for modeling bipartite sequence elements
Chengpeng Bi and Peter K Rogan