2 citations · 5 across the 8 of their papers we have counts for
9 papers
Testing the Agreement of Trees with Internal Labels
David Fernández-Baca, Lei Liu
The input to the agreement problem is a collection of phylogenetic trees, called input trees, over partially overlapping sets of taxa. The question…
EvoZip: Efficient Compression of Large Collections of Evolutionary Trees
Balanand Jha, David Fernández-Baca, Akshay Deepak +1
Phylogenetic trees represent evolutionary relationships among sets of organisms. Popular phylogenetic reconstruction approaches typically yield hundreds to thousands of trees on a…
Fast Compatibility Testing for Phylogenies with Nested Taxa
Yun Deng, David Fernández-Baca
Semi-labeled trees are phylogenies whose internal nodes may be labeled by higher-order taxa. Thus, a leaf labeled Mus musculus could nest within a subtree whose root node is labele…
Constructing and Employing Tree Alignment Graphs for Phylogenetic Synthesis
Ruchi Chaudhary, David Fernandez-Baca, J. Gordon Burleigh
Tree alignment graphs (TAGs) provide an intuitive data structure for storing phylogenetic trees that exhibits the relationships of the individual input trees and can potentially ac…
On Two Graph-Theoretic Characterizations of Tree Compatibility
Sudheer Vakati, David Fernández-Baca
Deciding whether a collection of unrooted trees is compatible is a fundamental problem in phylogenetics. Two different graph-theoretic characterizations of tree compatibility have…
Inferring Species Trees from Incongruent Multi-Copy Gene Trees Using the Robinson-Foulds Distance
Ruchi Chaudhary, J. Gordon Burleigh, David Fernández-Baca
We present a new method for inferring species trees from multi-copy gene trees. Our method is based on a generalization of the Robinson-Foulds (RF) distance to multi-labeled trees…