SeqAn

SeqAn [1] is an open-source C++ library of biological sequence analysis algorithms, including sequence IO, pairwise and multiple sequence alignment, and graph algorithms. No interface currently exists between SeqAn and BioPerl, though developing one might be a useful (and easily maintainable) replacement for some of the older BioPerl XS-based alignment implementations.

References

1. Döring A, Weese D, Rausch T, and Reinert K. SeqAn an efficient, generic C++ library for sequence analysis. BMC Bioinformatics. 2008 Jan 9;9:11. DOI:10.1186/1471-2105-9-11 |