Phylogenetic tree-building methods use molecular data to represent the evolutionary history of genes and taxa. A recurrent problem is to reconcile the various phylogenies built from different genomic sequences into a single one. This task is generally conducted by a two-step…
Desktop app
Plus and Minus… Plus and Minus SuperTrees

PluMiST Plus and Minus SuperTrees

A python framework which construct split-based supertrees with the computation…

A python framework which construct split-based supertrees with the computation of three majority-rule (MR)supertree variants and input trees (MR(-), MR(+) and MR(+)g). PluMiST searches tree space by…

SuperCAT SuperCAT

SuperCAT

A database that compiles and integrates multilocus sequence typing data from…

A database that compiles and integrates multilocus sequence typing data from all five schemes for the B. cereus group often involved in food poisoning incidents. The isolates have been classified…

Desktop app
Fasturec Fasturec

Fasturec

A software for the inference of an optimal species tree under duplication and…

A software for the inference of an optimal species tree under duplication and duplication-loss cost from a set of unrooted gene trees. Fasturec determines an optimal species tree from collections of…

Desktop app
Clann Clann

Clann

Constructs supertrees and explore the underlying phylogenomic information from…

Constructs supertrees and explore the underlying phylogenomic information from partially overlapping datasets. Clann has been developed to provide implementations of several supertree methods. The…

Desktop app
Fast Robinson-Foulds… Fast Robinson-Foulds Supertrees

FastRFS Fast Robinson-Foulds Supertrees

A method based on a dynamic programming method developed to find an exact…

A method based on a dynamic programming method developed to find an exact solution to the Robinson-Foulds Supertree problem within a constrained search space. FastRFS has excellent accuracy in terms…

Desktop app
Likelihood Utility… Likelihood Utility for Supertrees

L.U.St Likelihood Utility for Supertrees

A python tool for approximate maximum likelihood supertree inference. L.U.St…

A python tool for approximate maximum likelihood supertree inference. L.U.St allows the calculation of the approximate likelihood of a supertree, given a set of input trees, performs heuristic…

Desktop app
SuperNetwork-Simulated Annealing

SNSA SuperNetwork-Simulated Annealing

A method to construct a supernetwork from partial trees based on simulated…

A method to construct a supernetwork from partial trees based on simulated annealing. SNSA generates a planar network, whereas Z-closure and Q-imputation potentially produce non-planar networks.…

Desktop app
Rainbow Rainbow

Rainbow

Provides a graphic user interface to construct supertrees using different…

Provides a graphic user interface to construct supertrees using different methods. Rainbow also provides tools to analyze the quality of the supertrees produced.

Desktop app
SMIDGen SMIDGen

SMIDGen

A methodology for generating simulated datasets suitable as inputs to supertree…

A methodology for generating simulated datasets suitable as inputs to supertree methods. The data generation process mirrors data collection processes used by systematists when gathering empirical…

Desktop app
SuperFine SuperFine

SuperFine

A software tool for constructing supertrees from source phylogenies. SuperFine…

A software tool for constructing supertrees from source phylogenies. SuperFine is a meta-method that utilizes a novel two-step procedure in order to improve the accuracy and scalability of supertree…

Desktop app
Web app
PHYlogenetic Signal… PHYlogenetic Signal with Induction and…

PhySIC PHYlogenetic Signal with Induction and non-Contradiction

Enables the user to quickly summarize consensual information of a set of trees…

Enables the user to quickly summarize consensual information of a set of trees and localize groups of taxa for which the data require consolidation. For k input trees spanning a set of n taxa, this…

Desktop app
Web app
PHYlogenetic Signal… PHYlogenetic Signal with Induction and…
Desktop app
Web app
SuperTriplets SuperTriplets

SuperTriplets

A triplet-based supertree approach to phylogenomics. SuperTriplets infers…

A triplet-based supertree approach to phylogenomics. SuperTriplets infers supertrees with branch support values. The method avoids several practical limitations of the triplet-based binary matrix…

Web app
Supertree Toolkit Supertree Toolkit

STK Supertree Toolkit

A software tool for collecting, curating, storing and processing data ready for…

A software tool for collecting, curating, storing and processing data ready for inclusion in supertree analyses. STK does not build supertrees, however, it does include a number of functions to get…

Curators for Supertree construction

  • Vincent Ranwez's avatar image
    Vincent Ranwez
    UMR AGAP, Montpellier…
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