Phrap, originally developed by Dr. Phil Green at the University of Washington, was instrumental in completing the human genome sequence. As one of the first technologies reengineered through Geospiza's research program, rPhrap, developed in collaboration with Southwest Parallel Software, is the first new version of the Phrap DNA sequence assembly program in many years.

rPhrap's Features:

• Improved performance for the managing of larger and more difficult datasets
• Incorporates the ability to restrict assembly based on the identity agreement between reads
• Integrates mate pair constraints where pairs of reads have been sequenced from the same template and therefore have known distance and orientation with respect to each other
• Mate pairs are further used by rPhrap to order and orient contigs onto scaffolds
• Large datasets can be divided into groups ("read clusters") that can be assembled separately
• Can be run in stages, because the program creates a file containing the pairwise match tables
• Ability to take its own output file as input when the program is run again, so that these numbers do not have to be recalculated.

Geospiza is making this prototype version available for a limited free evaluation. We do weclome comments and suggestions, but at this time are unable to provide commercial support. Instead we encourage you to participate in the rPhrap discussion group.

For more information about Geospiza’s research efforts or the potential for future collaborations, please request more information or call (206) 633-4403.

Download rPhrap:
	Get the program.
rPhrap Documentation:
	View the on line help pages to learn about rPhrap and its output.
FinchTV:
	A goal of the Phrap SBIR project was to explore cross platform GUI environments. FinchTV is the result of that work.