Phylogenetic Software

• Duplication-Loss (DL) Model
  • TreeFix: Corrects topological errors in gene tree reconstructions.
  
  
• Duplication-Loss-Coalescence (DLC) Model
  • PLCT: Determines reconciliation feasibility with multiple sampled individuals and loci per species.
  • DLC-Coestimation: Reconstructs and reconciles gene trees through max a posteriori estimation.
  • DLCpar: Reconciles gene trees to species trees through maximum parsimony.
  
  
• Duplication-Transfer-Loss (DTL) Model
  • eMPRess: Reconciles phylogenetic trees while addressing the problems of choosing event costs and selecting representative solutions.
  • DTL-Diameter: Computes the diameter of the space of maximum parsimonious reconciliations.
  • Xscape: Computes Pareto-optimal reconciliations.
  • TreeFix-DTL: Corrects topological errors in gene tree reconstructions.
  
  
• Domain Evolution
  • STAR-MP: Reconstructs domain architecture evolution through maximum parsimony.
  
  

Last updated 02/09/2021.