What is SuperProteinTree?
SuperProteinTree is a tool that computes a super protein tree given a set of protein clusters. It also reconstructs a gene tree using the double reconciliation with a protein tree and a species tree.
Kuitche, E., Lafond, M., & Ouangraoua, A. (2017). Reconstructing protein and gene phylogenies using reconciliation and soft-clustering. Journal of bioinformatics and computational biology, 15(06), 1740007.