Genie 3.0 – Estimating Demographic History from Molecular Phylogenies

Genie 3.0

:: DESCRIPTION

Genie (Genealogy Interval Explorer) is a program for the inference of demographic history from reconstructed molecular phylogenies. It is primarily designed for the analysis of phylogenies reconstructed from highly variable viral gene sequences, but can be applied to other types of sequence data that contains a significant amount of phylogenetic information.

::DEVELOPER

Genie team

:: REQUIREMENTS

  • Windows /  MacOSX

:: DOWNLOAD

 Genie

:: MORE INFORMATION

Citation:

Pybus OG, Rambaut. A. 2002.
GENIE: Estimating demographic history from molecular phylogenies.
Bioinformatics 18:1404-5

TempEst 1.5.3 – Explore Temporal Signal & Clocklikeness in Molecular Phylogenies

TempEst 1.5.3

:: DESCRIPTION

TempEst is a tool for investigating the temporal signal and ‘clocklikeness’ of molecular phylogenies. It can read and analyse contemporaneous trees (where all sequences have been collected at the same time) and dated-tip trees (where sequences have been collected at different dates). It is designed for analysing trees that have not been inferred under a molecular-clock assumption to see how valid this assumption may be. It can also root the tree at the position that is likely to be the most compatible with the assumption of the molecular clock.

::DEVELOPER

Andrew Rambaut Group

:: SCREENSHOTS

n/a

:: REQUIREMENTS

  • Windows / Linux / MacOS

:: DOWNLOAD

TempEst

:: MORE INFORMATION

Citation

Virus Evol. 2016 Apr 9;2(1):vew007.
Exploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen).
Rambaut A, Lam TT, Max Carvalho L, Pybus OG.