PhyloNetworks: analysis for phylogenetic networks in Julia
SNaQ implements the statistical inference method in Solís-Lemus and Ané (2016). The procedure involves a numerical optimization of branch lengths and inheritance probabilities and a heuristic search in the space of phylogenetic networks.
If you use the package, and for details on SNaQ, please cite
- Claudia Solís-Lemus and Cécile Ané (2016). Inferring Phylogenetic Networks with Maximum Pseudolikelihood under Incomplete Lineage Sorting. PLoS Genet 12(3):e1005896. doi: 10.1371/journal.pgen.1005896
To get help, check
- the latest documentation
- the wiki for a step-by-step tutorial (June 2016) with background on networks
- the google group for common questions. Join the group to post/email your questions, or to receive information on new versions, bugs fixed, etc.