RepeatScout is a tool to discover repetitive substrings in DNA.
The RepeatScout source code can be downloaded from the links bellow:
RepeatScout (new) release 1.0.5, README
RepeatScout release 1.0.4 , README
RepeatScout release 1.0.2 , README
If you use RepeatScout, please cite the following paper:
Price A.L., Jones N.C. and Pevzner P.A. 2005. De novo identification of repeat families in large genomes. To appear in Proceedings of the 13 Annual International conference on Intelligent Systems for Molecular Biology (ISMB-05). Detroit, Michigan.
You may want to browse the ISMB PowerPoint presentation that explains the internals of the algorithm.