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diff --git a/academic/PhyML/README b/academic/PhyML/README index f86217a2ad..59a8afefb5 100644 --- a/academic/PhyML/README +++ b/academic/PhyML/README @@ -1,7 +1,13 @@ -PhyML is a phylogeny software based on the maximum-likelihood -principle. Early PhyML versions used a fast algorithm to perform -Nearest Neighbor Interchanges (NNIs), in order to improve a -reasonable starting tree topology. +PhyML is a software that estimates maximum likelihood phylogenies +from alignments of nucleotide or amino acid sequences. It provides a +wide range of options that were designed to facilitate standard +phylogenetic analyses. The main strengths of PhyML lies in the large +number of substitution models coupled to various options to search +the space of phylogenetic tree topologies, going from very fast and +efficient methods to slower but generally more accurate approaches. +It also implements two methods to evaluate branch supports in a sound +statistical framework (the non-parametric bootstrap and the +approximate likelihood ratio test). For details and citation New Algorithms and Methods to Estimate Maximum-Likelihood |