112 citations · 423 across the 60 of their papers we have counts for
9 papers · 1 filter
Relative Timing Information and Orthology in Evolutionary Scenarios
David Schaller, Tom Hartmann, Manuel Lafond +3
Evolutionary scenarios describing the evolution of a family of genes within a collection of species comprise the mapping of the vertices of a gene tree to vertices and edges of…
Clustering Systems of Phylogenetic Networks
Marc Hellmuth, David Schaller, Peter F. Stadler
Rooted acyclic graphs appear naturally when the phylogenetic relationship of a set of taxa involves not only speciations but also recombination, horizontal transfer, or hybridi…
Least resolved trees for two-colored best match graphs
David Schaller, Manuela Geiß, Marc Hellmuth +1
2-colored best match graphs (2-BMGs) form a subclass of sink-free bi-transitive graphs that appears in phylogenetic combinatorics. There, 2-BMGs describe evolutionarily most closel…
Indirect Identification of Horizontal Gene Transfer
David Schaller, Manuel Lafond, Peter F. Stadler +2
Several implicit methods to infer Horizontal Gene Transfer (HGT) focus on pairs of genes that have diverged only after the divergence of the two species in which the genes reside.…
Complete Characterization of Incorrect Orthology Assignments in Best Match Graphs
David Schaller, Manuela Geiß, Peter F. Stadler +1
Genome-scale orthology assignments are usually based on reciprocal best matches. In the absence of horizontal gene transfer (HGT), every pair of orthologs forms a reciprocal best m…
From Best Hits to Best Matches
Peter F. Stadler, Manuela Geiß, David Schaller +5
Many of the commonly used methods for orthology detection start from mutually most similar pairs of genes (reciprocal best hits) as an approximation for evolutionary most closely r…