In this paper, we consider the edge searching and node searching problems on trees. Given a tree, we show a transformation from an optimal node-search strategy to an optimal edge-...
Recently, a new compact representation for suboptimal alignments was proposed by Naor and Brutlag (1993). The kernel of that representation is a minimal directed acyclic graph (DAG...
This paper considers enumeration of substring equivalence classes introduced by Blumer et al. [1]. They used the equivalence classes to define an index structure called compact dir...
Move-to-Front, Distance Coding and Inversion Frequencies are three simple and effective techniques used to process the output of the Burrows-Wheeler Transform. In this paper we pr...
We consider the problem of reconciling gene trees with a species tree based on the widely accepted Gene Duplication model from Goodman et al. Current algorithms that solve this pro...