The use of genomic data sets for phylogenetics is complicated by the fact that evolutionary
processes such as gene duplication and loss, or incomplete lineage sorting (deep …

Solving the gene duplication problem is a classical approach for species tree inference from
gene trees that are confounded by gene duplications. This problem takes a collection of …

The gene duplication problem seeks a species tree that reconciles given gene trees with the
minimum number of gene duplication events, called gene duplication cost. To better assess …

Supertree problems are a standard tool for synthesizing large-scale species trees from a
given collection of gene trees under some problem-specific objective. Unfortunately, these …

Solving median tree problems is a classic approach for inferring species trees from a
collection of discordant gene trees. Such problems are typically NP-hard and dealt with by …

Solving median tree problems is a classic approach for inferring species trees from a
collection of discordant gene trees. Median tree problems are typically NP-hard and dealt …

The gene duplication problem seeks a species tree that reconciles given gene trees with the
minimum number of gene duplication events, called gene duplication cost. To better assess …

Background Solving median tree problems under tree reconciliation costs is a classic and
well-studied approach for inferring species trees from collections of discordant gene trees …

Orthology detection is an important task within the context of genome annotation, gene
nomenclature, and the understanding of gene evolution. With the rapidly accelerating pace …

Gene trees describe how parts of the species have evolved over time, and it is assumed that
gene trees have evolved along the branches of the species tree. However, some of gene …