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Swift is an open source package for primary data analysis on next-gen sequence data "from images to basecalls". Currently Swift is targeted toward Solexa/Illumina sequencing, but is designed to be platform agnostic.
sheep is an open source rigid body dynamics engine written in modern, strictly portable C++. It features collisions between hierarchies of convex polyhedra (using the SWIFT library), resting contacts handling and an extensible set of joints.