The rankup package and subpackages contain classes and interfaces implementing the lazy rank updating method to enumerate adjacent modes. The laziness is reflected by two matrix types: For implementation details, also see [1].

References

  1. Terzer, M. and Stelling, J., "Large scale computation of elementary flux modes with bit pattern trees",
    Bioinformatics, August 1, 2008, doi:10.1093/bioinformatics/btn401