RANGER-DTL is a software package for inferring gene family evolution by speciation, gene duplication, horizontal gene transfer, and gene loss. The software takes as input a gene tree (rooted or unrooted) and a rooted species tree and reconciles the two by postulating speciation, duplication, transfer, and loss events. RANGER-DTL implements efficient algorithms that can efficiently analyze trees with even thousands of taxa, and can handle both undated and dated species trees (i.e., both cladograms and chronograms).
- Linux/MacOsX/ Windows
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Efficient Algorithms for the Reconciliation Problem with Gene Duplication, Horizontal Transfer, and Loss
Mukul S. Bansal, Eric J. Alm, Manolis Kellis.
ISMB 2012; Bioinformatics 28: i283-i291, 2012.