TY - GEN
T1 - Computing the rooted triplet distance between galled trees by counting triangles
AU - Jansson, Jesper Andreas
AU - Lingas, Andrzej
PY - 2012/7/4
Y1 - 2012/7/4
N2 - We consider a generalization of the rooted triplet distance between two phylogenetic trees to two phylogenetic networks. We show that if each of the two given phylogenetic networks is a so-called galled tree with n leaves then the rooted triplet distance can be computed in o(n2.688) time. Our upper bound is obtained by reducing the problem of computing the rooted triplet distance to that of counting monochromatic and almost- monochromatic triangles in an undirected, edge-colored graph. To count different types of colored triangles in a graph efficiently, we extend an existing technique based on matrix multiplication and obtain several new related results that may be of independent interest.
AB - We consider a generalization of the rooted triplet distance between two phylogenetic trees to two phylogenetic networks. We show that if each of the two given phylogenetic networks is a so-called galled tree with n leaves then the rooted triplet distance can be computed in o(n2.688) time. Our upper bound is obtained by reducing the problem of computing the rooted triplet distance to that of counting monochromatic and almost- monochromatic triangles in an undirected, edge-colored graph. To count different types of colored triangles in a graph efficiently, we extend an existing technique based on matrix multiplication and obtain several new related results that may be of independent interest.
UR - http://www.scopus.com/inward/record.url?scp=84863105811&partnerID=8YFLogxK
U2 - 10.1007/978-3-642-31265-6_31
DO - 10.1007/978-3-642-31265-6_31
M3 - Conference article published in proceeding or book
SN - 9783642312649
T3 - Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
SP - 385
EP - 398
BT - Combinatorial Pattern Matching - 23rd Annual Symposium, CPM 2012, Proceedings
T2 - 23rd Annual Symposium on Combinatorial Pattern Matching, CPM 2012
Y2 - 3 July 2012 through 5 July 2012
ER -