English

On a conjecture of compatibility of multi-states characters

Data Structures and Algorithms 2011-05-06 v1 Populations and Evolution

Abstract

Perfect phylogeny consisting of determining the compatibility of a set of characters is known to be NP-complete. We propose in this article a conjecture on the necessary and sufficient conditions of compatibility: Given a set C\mathcal{C} of rr-states full characters, there exists a function f(r)f(r) such that C\mathcal{C} is compatible iff every set of f(r)f(r) characters of C\mathcal{C} is compatible. Some previous work showed that f(2)=2f(2)=2, f(3)=3f(3)=3 and f(r)r1f(r) \ge r-1. Gusfield et al. 09 conjectured that f(r)=rf(r) = r for any r2r \ge 2. In this paper, we present an example showing that f(4)5f(4) \ge 5 and then a closure operation for chordal sandwich graphs. The later problem is a common approach of perfect phylogeny. This operation can be the first step to simplify the problem before solving some particular cases f(4),f(5),...f(4), f(5), ... , and determining the function f(r)f(r).

Keywords

Cite

@article{arxiv.1105.1109,
  title  = {On a conjecture of compatibility of multi-states characters},
  author = {Michel Habib and Thu-Hien To},
  journal= {arXiv preprint arXiv:1105.1109},
  year   = {2011}
}