├── LICENSE ├── README.md └── phylobench ├── DESCRIPTION ├── NAMESPACE ├── R ├── benchmarks_EP.R └── phylobench.R ├── inst └── extdata │ ├── input │ ├── FASTA │ │ └── seq1_DNA.fas │ ├── Newick │ │ ├── three_unrooted_trees_4tips.tre │ │ ├── tree1_Newick.tre │ │ └── tree_primates.tre │ └── Table │ │ ├── M_SaitouNei.txt │ │ └── data_primates.txt │ └── output │ ├── BF1.txt │ ├── PIC_primates.txt │ ├── bt1.txt │ └── tree_NJ_SaitouNei.tre ├── man ├── BF.Rd ├── BTIMES.Rd ├── MANTEL.Rd ├── NJ_SaitouNei.Rd ├── PIC.Rd ├── RCOAL.Rd ├── REORDERPHYLO.Rd ├── SPLITS.Rd ├── TOPODIST.Rd ├── ULTRAMETRIC.Rd ├── VCVBM.Rd ├── YULE.Rd ├── phylobench-package.Rd └── runTests.Rd └── vignettes └── PhylogeneticBenchmarks.Rnw /LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/emmanuelparadis/phylobench/HEAD/LICENSE -------------------------------------------------------------------------------- /README.md: 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