Man pages for radamsRHA/SpeciesTopoTestR
Likelihood-based tests of species topologies in R
| Compute.GeneTree_Likelihoods | Compute.GeneTree_Likelihoods: function to compute gene tree... |
| Compute.GeneTree_Likelihoods_SpeciesNetwork | Compute.GeneTree_Likelihoods_SpeciesNetwork: function to... |
| Conduct.KH_1 | Conduct.KH_1: function to conduct the KH_1 STAR test given... |
| Conduct.KH_1N | Conduct.KH_1N: function to conduct the KH_1N STAR test given... |
| Conduct.KH_2 | Conduct.KH_2: function to conduct the KH_2 STAR test given... |
| Conduct.KH_2N | Conduct.KH_2N: function to conduct the KH_2N STAR test given... |
| Conduct.KH_3 | Conduct.KH_3: function to conduct the KH_2 STAR test given... |
| Conduct.KH_3N | Conduct.KH_3N: function to conduct the KH_2N STAR test given... |
| Conduct.SH_1 | Conduct.SH_1: function to conduct the SH_1 STAR test given a... |
| Conduct.SH_1N | Conduct.SH_1N: function to conduct the SH_1N STAR test given... |
| Conduct.SH_2 | Conduct.SH_2: function to conduct the SH_2 STAR test given a... |
| Conduct.SH_2N | Conduct.SH_2N: function to conduct the SH_1N STAR test given... |
| Conduct.SOWH_1 | Conduct.SOWH_1: function to conduct the SOWH_1 STAR test... |
| Conduct.SOWH_1N | Conduct.SOWH_1N: function to conduct the SOWH_1N STAR test... |
| Conduct.SOWH_2 | Conduct.SOWH_2: function to conduct the SOWH_1 STAR test... |
| Conduct.SOWH_2N | Conduct.SOWH_2N: function to conduct the SOWH_2N STAR test... |
| Conduct.SOWH_2v2 | Conduct.SOWH_2v2: function to conduct the SOWH_1 STAR test... |
| Conduct.SOWH_2v3 | Conduct.SOWH_2v3: function to conduct the SOWH_1 STAR test... |
| Conduct.SpeciesTopoTestR | Conduct.SpeciesTopoTestR: function to conduct an array of... |
| Estimate.GeneTrees_IqTree | Estimate.GeneTrees_IqTree: function to estimate a set of gene... |
| Optimize.BranchLengths | Optimize.BranchLengths: function to optimize branch lengths... |
| Optimize.Network | Optimize.Network: function to optimize a species network... |
| Optimize.NetworkSearch | Optimize.NetworkSearch: function to find the ML network... |
| Optimize.TopologySearch | Optimize.TopologySearch: function to find the ML topology... |
| Resample.Bootstrap_GeneTree_Replicates_NP | Resample.Bootstrap_GeneTree_Replicates_NP: function to... |
| Simulate.GeneSequenceAlignments | Simulate.GeneSequenceAlignments: function to simulate a set... |
| Simulate.GeneTrees_From_SpeciesNetwork | Simulate.GeneTrees_From_SpeciesNetwork: function to simulate... |
| Simulate.GeneTrees_From_SpeciesNetwork_MS | Simulate.GeneTrees_From_SpeciesNetwork_MS: function to... |
| Simulate.GeneTrees_From_SpeciesTree | Simulate.GeneTrees_From_SpeciesTree: function to simulate a... |
| Simulate.GeneTrees_From_SpeciesTree2 | Simulate.GeneTrees_From_SpeciesTree2: function to simulate a... |
| Simulate.GeneTrees_From_SpeciesTree3 | Simulate.GeneTrees_From_SpeciesTree3: function to simulate a... |
