DCJ2HP – Bayesian Sampling of Genomic Rearrangement Scenarios via Double Cut and Join

DCJ2HP

:: DESCRIPTION

DCJ2HP is a software of Bayesian sampling of genomic rearrangement scenarios via double cut and join. The Double Cut and Join (DCJ) model, while less relevant, is computationally easier than the Hannenhalli–Pevzner (HP) model. The author use the computational facilities of the DCJ model to draw a sampling of HP scenarios. It is based on a parallel MCMC method that cools down DCJ scenarios to HP scenarios

::DEVELOPER

István Miklós , Eric Tannier

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux/Windows/MacOsx
Java

DCJ2HP

:: MORE INFORMATION

Citation

Bioinformatics. 2010 Dec 15;26(24):3012-9. Epub 2010 Oct 29.
Bayesian sampling of genomic rearrangement scenarios via double cut and join.
Miklós I, Tannier E.

PhyloQFold – Bayesian Sampling of Evolutionarily Conserved RNA Secondary Structures with Pseudoknot

PhyloQFold

:: DESCRIPTION

PhyloQFold is a program for Bayesian sampling of evolutionarily conserved RNA secondary structures with pseudoknots.

::DEVELOPER

Dirk Metzler

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux / Windows/MacOsX
C++ Compiler

:: DOWNLOAD

PhyloQFold

:: MORE INFORMATION

Citation

Bioinformatics. 2012 Sep 1;28(17):2242-8. doi: 10.1093/bioinformatics/bts369.
Bayesian sampling of evolutionarily conserved RNA secondary structures with pseudoknots.
Doose G, Metzler D.

TreeTime 1.0.1 – Bayesian Sampling of Phylogenetic Trees from Molecular data

TreeTime 1.0.1

:: DESCRIPTION

TreeTime is an extensible C++ software package for the Bayesian sampling of phylogenetic trees from molecular data.

::DEVELOPER

Lin Himmelmann

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux / Windows/MacOsX

:: DOWNLOAD

TreeTime

:: MORE INFORMATION

Citation

TreeTime: an extensible C++ software package for Bayesian phylogeny reconstruction with time-calibration.
Himmelmann L, Metzler D.
Bioinformatics. 2009 Sep 15;25(18):2440-1. doi: 10.1093/bioinformatics/btp417.