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SHRiMP - SHort Read Mapping Package
SHRiMP is a software package for aligning genomic reads against a target genome. It was primarily developed with the multitudinous short reads of next generation sequencing machines in mind, as well as Applied Biosystem's colourspace genomic representation. SHRiMP was originally designed and written by Michael Brudno and Stephen M. Rumble, with considerable input and testing by the SidowLab. Since then, Adrian Dalca, Marc Fiume and Vladimir Yanovsky have made considerable contributions to probability calculations and 2-pass SMS mapping algorithms. The original SHRiMP publication can be found here.Additional information is available in the README file.
module load shrimp shrimp2sam