3 citations · 3 across the 1 of their papers we have counts for
4 papers
Parametric k-best alignment
Peter Huggins, Ruriko Yoshida
Optimal sequence alignments depend heavily on alignment scoring parameters. Given input sequences, {\em parametric alignment} is the well-studied problem that asks for all possible…
Selecting universities: personal preference and rankings
Peter Huggins, Lior Pachter
Polyhedral geometry can be used to quantitatively assess the dependence of rankings on personal preference, and provides a tool for both students and universities to assess US News…
On the optimality of the neighbor-joining algorithm
Kord Eickmeyer, Peter Huggins, Lior Pachter +1
The popular neighbor-joining (NJ) algorithm used in phylogenetics is a greedy algorithm for finding the balanced minimum evolution (BME) tree associated to a dissimilarity map. Fro…
Short Rational Functions for Toric Algebra and Applications
Jesus De Loera, David Haws, Raymond Hemmecke +3
We encode the binomials belonging to the toric ideal associated with an integral matrix using a short sum of rational functions as introduced by Barvinok \ci…