PhyloNetworks estimate & plot phylogenetic networks - JuliaPhylo/PhyloNetworks.jl GitHub Wiki

goal: use data in the form of gene trees or quartet concordance factors, to estimate a phylogenetic network: for species relationships that may include gene flow or hybridization

overview

• Introduction: explicit networks, introduction to Julia and simple functions in PhyloNetworks: read/write/plot/root networks.
• SNaQ: maximum pseudolikelihood estimation of networks.
• Choice of number of hybridizations
• Bootstrap analysis

files

In the folder data_results, there are different datasets. We will use the dataset baseline.gamma0.3_n30. The script that we will follow is called tutorial.jl and it is in scripts.