PPT-Computing Triplet and Quartet Distances Between Trees

Gerth Stølting Brodal Morten Kragelund Holt Jens Johansen Aarhus University Rolf Fagerberg University of Southern Denmark Thomas Mailund Christian N S Pedersen Andreas Sand Aarhus University. The quartet arises from coupling with equal coupling constants to three protons or other spin 12 nuclei Example q 7 Hz A quartet may be thought of as a doublet of doublet of doublets with three equal splittings and the following splitting tree whic Trees and Spanning TreesA graph having no cycles is A graph having no cycles is acyclic.acyclic.A forest is an acyclic graph.is an acyclic graph.A leaf is a vertex of degree 1.is a vertex of degree 1. What simulations can tell us. Questions that simulations cannot answer. Simulations are on finite data.. S. ome questions (e.g., whether a method is statistically consistent) are about what happens as amount of data increases to infinity. . Molecular phylogenetic methods 4. 11-10-2011. Maximum likelihood methods. So far we have only considered a single . site (configuration). . The likelihood for all sites is the product of the likelihoods for each site if all the sites evolve independently. . Illustrations from . R. T. Morrison and R. N. Boyd,. Organic Chemistry. NMR Chemical Shift. Chemical Shift ~ measure of local electron density.  =. ( . . - . . ref. )/. . ref . * 10. Morten . Kragelund. Holt. Jens Johansen. Gerth. . Stølting. . Brodal. 1. Aarhus University. Introduction. Trees are used in many branches of science.. Phylogenetic. trees are especially used in biology and bioinformatics.. Edith Cohen. Joint with: . Thomas . Pajor. , . Daniel . Delling. , Renato . Werneck. Microsoft Research . Very Large Graphs. Model many types of relations and interactions (edges) between entities (nodes). Edith Cohen. Joint with: . Thomas . Pajor. , . Daniel . Delling. , Renato . Werneck. Very Large Graphs. Model relations and interactions (edges) between entities (nodes). Call . detail, . email exchanges, . Between Trees of Arbitrary Degree. Gerth . Stølting. Brodal. Aarhus University. Rolf Fagerberg. University. of Southern Denmark. Thomas Mailund, Christian . N. S. Pedersen, Andreas Sand. Aarhus University. Tandy Warnow. Joint work with . Siavash. . Mirarab. , . Md. S. . Bayzid. , and others. Orangutan. Gorilla. Chimpanzee. Human. From the Tree of the Life Website. ,. . University . of . Arizona. Dates from Lock et al. Nature, 2011. Newick strings. Representing rooted trees using clades and rooted triplet trees. Constructing a rooted tree from its set of clades using Hasse Diagrams . Constructing a rooted tree from rooted triplet trees using Aho, Sagiv, Szymanski, and Ullman . Morten . Kragelund. Holt. Jens Johansen. Gerth. . Stølting. . Brodal. 1. Aarhus University. Introduction. Trees are used in many branches of science.. Phylogenetic. trees are especially used in biology and bioinformatics.. Jasmin . sutkovic. What are those?. Phylogenetic trees . represent . the evolutionary relationships among a set of organisms or groups of . organisms. These organisms are c. alled. . taxa (singular: taxon) that are believed to have a common ancestor. Maryam . Rabiee. , . Siavash. . Mirarab. Introduction to INSTRAL. Species Tree Estimation. Adding a species to an existing dataset with a species tree. Start from scratch?. Add directly to species tree? .