...
Computes the trees, tripartitions and clusters contained in a phylogenetic network. | |
Computes the distance between two phylogenetic networks based on their topologies. | |
Computes the number of coalescent scenarios that can explain the incongruence observed between two trees. | |
Count the number of extra lineages contributed by a species tree and a set of gene trees. | |
Generates CPLEX input for a species tree and a set of gene trees. | |
Generates species tree topologies based on maximal sets of compatible clusters. | |
Infers the species tree using bootstrap with existing | |
Infer the species tree from gene trees using Democratic Vote. | |
Infer the species tree by GLASS. | |
Infer the species tree from gene trees using an extended version of Majority Consensus greedy consensus which can deal with gene trees having multiple alleles in species and unrooted gene trees. | |
Infer the species tree using the “Minimize Deep Coalescence” (MDC) criterion. | |
Infer the species tree using MDC criterion but also considering time. | |
Infer the species tree from unrooted gene trees using MDC criterion. | |
Computes the least common ancestor of a group of nodes in a tree. | |
Computes a Maximum Agreement Subtree of a pair of trees. | |
Refine and root gene trees with respect to a rooted binary species tree under MDC criterion. | |
Detects and reconstructs horizontal gene transfer events from phylogenetic incongruence. | |
Simulates gene trees under the phylogenetic network model. | |
Computes the symmetric difference, also known as the Robinson-Foulds (RF) distance, between two trees. |